Array 1 317069-317768 **** Predicted by CRISPRDetect 2.4 *** >NZ_CTBR01000002.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain H02 isolate H02, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 317069 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 317130 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 317191 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 317252 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 317313 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 317374 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 317435 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 317496 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 317557 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 317618 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 317679 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 317740 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 12 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GCCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGTGTTCCCC # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [70.0-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.51,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 318259-319568 **** Predicted by CRISPRDetect 2.4 *** >NZ_CTBR01000002.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain H02 isolate H02, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 318259 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 318320 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 318381 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 318442 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 318503 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 318564 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 318625 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 318686 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 318747 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 318808 29 96.6 32 .................A........... GACGAGTTCTCTATTTACGACGTTATTGAGCA 318869 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 318930 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 318991 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 319053 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 319114 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 319175 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 319236 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 319297 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 319358 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 319419 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 319480 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 319541 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 22 29 97.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GGATAAACCGCCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATTTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.03 # Score Detail : 1:0, 2:3, 3:0, 4:0.88, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.89, # 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 [3-10] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [0.0-63.3]%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], // Array 3 335702-336403 **** Predicted by CRISPRDetect 2.4 *** >NZ_CTBR01000002.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain H02 isolate H02, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 335702 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 335763 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 335824 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 335885 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 335947 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 336008 29 100.0 32 ............................. GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 336069 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 336130 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 336191 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 336252 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 336313 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 336374 29 100.0 0 ............................. | A [336401] ========== ====== ====== ====== ============================= ================================= ================== 12 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 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 [0-1] 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], //