Array 1 97906-99886 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZNQ01000003.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO_STM0018 BCW_8404_1__paired__contig_3, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 97906 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 97967 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 98028 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 98089 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 98150 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 98211 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 98272 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 98333 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 98394 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 98455 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 98516 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 98577 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 98638 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 98699 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 98760 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 98821 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 98882 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 98943 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 99004 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 99065 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 99126 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 99187 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 99248 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 99309 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 99371 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 99432 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 99493 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 99554 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 99615 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 99676 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 99737 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 99798 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 99859 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 116019-117495 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZNQ01000003.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO_STM0018 BCW_8404_1__paired__contig_3, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 116019 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 116080 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 116141 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 116202 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 116264 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 116325 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 116386 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 116447 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 116508 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 116569 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 116630 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 116691 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 116752 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 116813 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 116874 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 116935 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 116997 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 117100 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 117161 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 117222 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 117283 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 117344 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 117405 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 117466 29 96.6 0 A............................ | A [117492] ========== ====== ====== ====== ============================= ========================================================================== ================== 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], //