Array 1 5375-6851 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZYJ01000026.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO STM1558 BCW_8413_1__paired__contig_26, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 5375 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 5436 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 5497 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 5558 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 5620 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 5681 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 5742 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 5803 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 5864 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 5925 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 5986 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 6047 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 6108 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 6169 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 6230 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 6291 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 6353 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 6456 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 6517 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 6578 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 6639 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 6700 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 6761 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 6822 29 96.6 0 A............................ | A [6848] ========== ====== ====== ====== ============================= ========================================================================== ================== 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], // Array 1 12759-10778 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZYJ01000013.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO STM1558 BCW_8413_1__paired__contig_13, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 12758 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 12697 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 12636 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 12575 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 12514 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 12453 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 12392 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 12331 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 12270 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 12209 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 12148 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 12087 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 12026 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 11965 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 11904 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 11843 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 11782 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 11721 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 11660 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 11599 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 11538 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 11477 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 11416 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 11355 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 11293 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 11232 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 11171 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 11110 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 11049 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 10988 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 10927 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 10866 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 10805 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], //