Array 1 97887-99745 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZYV01000020.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO STM3617 BCW_8431_1__paired__contig_20, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 97887 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 97948 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 98009 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 98070 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 98131 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 98192 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 98253 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 98314 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 98375 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 98436 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 98497 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 98558 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 98619 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 98680 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 98741 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 98802 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 98863 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 98924 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 98985 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 99046 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 99107 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 99168 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 99230 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 99291 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 99352 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 99413 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 99474 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 99535 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 99596 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 99657 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 99718 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 31 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 116081-117373 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZYV01000020.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO STM3617 BCW_8431_1__paired__contig_20, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 116081 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 116143 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 116204 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 116265 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 116326 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 116387 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 116448 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 116509 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 116570 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 116631 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 116692 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 116753 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 116814 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 116876 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 116979 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 117040 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 117101 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 117162 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 117223 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 117284 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 117345 29 89.7 0 A..........................AC | ========== ====== ====== ====== ============================= ========================================================================== ================== 21 29 99.2 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGTGTGTTCCCCGCGCCAGCGGGGATAAACCGTGAGCAACGACAGTAAATAATTTTTCGTGCTGGTGTTCCCCGCGCCAGCGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGCCAGCGGGGATAAACCGCAACCAGGCTGGATCGTAACTCCTATCCCCTC # Right flank : CGTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTC # Questionable array : NO Score: 6.08 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 5:0, 6:0.25, 7:-0.13, 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 [0-4] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [33.3-48.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //