Array 1 289-17 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXLL01000377.1 Salmonella enterica subsp. enterica serovar Typhimurium strain INSP 24 NODE_377_length_301_cov_0.752252, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 288 29 96.6 32 .............T............... AAAAAAATGCGATCGGTACTCAACCCGGCCAC 227 29 100.0 32 ............................. CGCCGGTTTCGGTGGGGGCTGAATCCTGAACC 166 29 100.0 32 ............................. TGGGACATTCTCGCTAGTCACGGTCATGTCAT 105 29 100.0 32 ............................. TGCGCCAACGACTGGAATTTTTGCGTGTAGCC 44 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 5 29 95.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CATAGACCCGGC # Right flank : GTTGCATAATCATAATC # Questionable array : NO Score: 5.86 # Score Detail : 1:0, 2:3, 3:0, 4:0.80, 5:0, 6:0.25, 7:0.01, 8:0.8, 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 [5-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [20.0-8.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 1-267 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXLL01000409.1 Salmonella enterica subsp. enterica serovar Typhimurium strain INSP 24 NODE_409_length_267_cov_0.973404, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1 26 82.8 32 ---A..T...................... GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 59 29 100.0 32 ............................. TCAGCGTAGGTTGTTGACGTCCCCACCAGCCC 120 29 100.0 32 ............................. CCATTTTTGATCATCTCCTCCAGCCTGCTGAG 181 29 96.6 32 .............T............... TGGGAACCGTCAAGGCCCGAGGGTGACGGCTG 242 26 86.2 0 .............T............--- | ========== ====== ====== ====== ============================= ================================ ================== 5 29 93.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : | # Questionable array : NO Score: 5.63 # Score Detail : 1:0, 2:3, 3:0, 4:0.65, 5:0, 6:0.25, 7:0.01, 8:0.8, 9:0.92, # 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: NA [3-3] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.24,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 98020-100061 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXLL01000005.1 Salmonella enterica subsp. enterica serovar Typhimurium strain INSP 24 NODE_5_length_223809_cov_4.70731, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 98020 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 98081 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 98142 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 98203 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 98264 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 98325 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 98386 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 98447 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 98508 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 98569 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 98630 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 98691 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 98752 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 98813 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 98874 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 98935 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 98996 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 99057 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 99118 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 99179 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 99240 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 99301 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 99362 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 99423 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 99484 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 99546 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 99607 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 99668 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 99729 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 99790 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 99851 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 99912 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 99973 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 100034 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 34 29 98.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGAGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 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 116194-117670 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXLL01000005.1 Salmonella enterica subsp. enterica serovar Typhimurium strain INSP 24 NODE_5_length_223809_cov_4.70731, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 116194 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 116255 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 116316 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 116377 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 116439 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 116500 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 116561 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 116622 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 116683 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 116744 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 116805 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 116866 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 116927 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 116988 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 117049 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 117110 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 117172 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 117275 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 117336 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 117397 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 117458 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 117519 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 117580 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 117641 29 96.6 0 A............................ | A [117667] ========== ====== ====== ====== ============================= ========================================================================== ================== 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], //