Array 1 109273-107961 **** Predicted by CRISPRDetect 2.4 *** >NZ_JREM01000004.1 Salmonella enterica subsp. enterica serovar Bareilly str. CFSAN000178 CFSAN000178_contig0003, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 109272 29 100.0 32 ............................. GCGGATCTGTTTTGAGGTGTTCTTCAACTGTG 109211 29 100.0 32 ............................. ACTATTCGGTCAAAACAGCCTCCATTCTCAGC 109150 29 100.0 32 ............................. CCAGCGCAAGCGGGAAACAATCATCGGGCAAG 109089 29 100.0 32 ............................. GGCCAGTTCAACAAACACCACGACGCGGGAAT 109028 29 100.0 32 ............................. GGTGACGGCTTTGTCCGACCGCATCCGGGCCA 108967 29 100.0 32 ............................. ACGAGGGACGGCTGGCGCTGGAGAGATTTTCA 108906 29 100.0 32 ............................. ACCCGCTCCGCGCAGCTCGCAGCGTAATTCGA 108845 29 100.0 32 ............................. ACACATATACTCTCCCCGTTTGCATCATCAGG 108784 29 100.0 32 ............................. ATCGCTAAATCTAAAATGCCCTCGTACAGTGA 108723 29 100.0 32 ............................. TTATCTATGCCATAGTGACCCCACGTTACATA 108662 29 100.0 32 ............................. TATAATTGGCGTCCATATATCTGGATATTTAC 108601 29 100.0 32 ............................. ATTGTTTCCCGCTTGCGCTTGCATCGCCGGAT 108540 29 100.0 32 ............................. CTTACTATCAGCTCGCGTGCTGTTTGCAGGCC 108479 29 100.0 32 ............................. GATGCCAAACTGGTCAAGCTGGCGATTATCAA 108418 29 100.0 32 ............................. ACCATTACTGACGTGATGGCGGCGCAAGGGTT 108357 29 100.0 32 ............................. GGAAATAAACTCCTTGAGCAGCGGCAAGCAAC 108296 29 100.0 33 ............................. TGTGAACGTCGGATAAATACCGATTCCGCCTGC 108234 29 100.0 32 ............................. AGTTTCTTGTGACGCTTCTATTCAGGACAAAA 108173 29 100.0 32 ............................. CCAGATCGCGCAAATCGCTGCGAGTATTCAGG 108112 29 96.6 32 ............T................ TCCACGTCGCCCGCCATCAGGTTCGCCAGCTC 108051 29 89.7 32 ............T....C....G...... AACTGGTACACCCGCCTGACGTTTGTTCAGCT 107990 29 96.6 0 ............T................ | A [107963] ========== ====== ====== ====== ============================= ================================= ================== 22 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAATAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCAACAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCTCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTTGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCTGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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 [6-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [51.7-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 126095-125395 **** Predicted by CRISPRDetect 2.4 *** >NZ_JREM01000004.1 Salmonella enterica subsp. enterica serovar Bareilly str. CFSAN000178 CFSAN000178_contig0003, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 126094 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 126033 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 125972 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 125911 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 125849 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 125788 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 125727 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 125666 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 125605 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 125544 29 100.0 32 ............................. GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 125483 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 125422 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 12 29 97.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATTGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTCCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGGC # Questionable array : NO Score: 6.13 # Score Detail : 1:0, 2:3, 3:0, 4:0.87, 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 [5-1] 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], //