Array 1 163522-162045 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZYT01000009.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO STM3513 BCW_8428_1__paired__contig_9, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 163521 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 163460 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 163399 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 163338 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 163276 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 163215 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 163154 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 163093 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 163032 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 162971 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 162910 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 162849 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 162788 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 162727 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 162666 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 162605 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 162543 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 162440 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 162379 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 162318 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 162257 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 162196 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 162135 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 162074 29 96.6 0 A............................ | A [162047] ========== ====== ====== ====== ============================= ========================================================================== ================== 24 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 181635-179654 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZYT01000009.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO STM3513 BCW_8428_1__paired__contig_9, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 181634 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 181573 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 181512 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 181451 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 181390 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 181329 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 181268 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 181207 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 181146 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 181085 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 181024 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 180963 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 180902 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 180841 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 180780 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 180719 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 180658 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 180597 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 180536 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 180475 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 180414 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 180353 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 180292 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 180231 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 180169 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 180108 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 180047 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 179986 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 179925 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 179864 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 179803 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 179742 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 179681 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 33 29 98.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGAGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [10-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-70.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //