Array 1 12700-11296 **** Predicted by CRISPRDetect 2.4 *** >NZ_NPLX01000005.1 Salmonella enterica subsp. enterica serovar Bergen strain CFSAN059892 CFSAN059892_5, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= =============================================== ================== 12699 29 100.0 32 ............................. AAAACGGCTACGGCGGGCGCAAACAATACACG 12638 29 100.0 32 ............................. TGGGCGGGGTTTCGGTTGCAGAGAGCTGTTCG 12577 29 100.0 32 ............................. TTTTCTTGCGGAAAATTCAGTTTTTGAGAGGA 12516 29 100.0 32 ............................. CCTATGCTTCCATGAGCGATTTTAACGCCACG 12455 29 100.0 32 ............................. TGCGTGCCATTGTTTCCCGTGAAAGCAAAGAC 12394 29 100.0 32 ............................. TATCCGGCGCGGCGGAGTCGACACACGTAGCT 12333 29 100.0 32 ............................. CGCATGGTGCTTGCCGTGTTGGACGAGATTTC 12272 29 100.0 32 ............................. TAGTCGCCAAAGGCGCCCACTAAATGACAGGC 12211 29 100.0 30 ............................. TGAAACTACAGGCAGGGTAGCGCCGATTTC 12150 29 89.7 0 .......T.................CG.. - Deletion [12122] 12127 23 72.4 32 ------AA..................... TGCAGCTGCGACCAGCGGCGACGATTTTGATT 12072 29 100.0 32 ............................. ATTTCTCCCTGTTCGTCCGCCGGCTCACTCAG 12011 29 100.0 32 ............................. CCGGAGCCTGACCAGGATTTTTCCGCCGTGTA 11950 29 100.0 32 ............................. GTTACTGTATTATCTCTCACATAGACCCGGCA 11889 29 100.0 32 ............................. CCTGGCGTTACTCGCCCGGTCAGTTATACGCG 11828 29 100.0 32 ............................. TTTGCCGCAGCTCGGTGAGGGAACGTTTCATA 11767 29 100.0 32 ............................. GACGCTTACATCTCACCGAGGGATTTTGAGGC 11706 29 96.6 32 .........A................... GCCAAACAGGTTGAGATAGGGCTTCATTATGA 11645 29 100.0 32 ............................. CGAGGATAGTTGTACCAGGTCAGGCCGCGCTG 11584 29 96.6 32 ............................T GGTGATGTTCGTCTGAATCGGGCCTTATGGTC 11523 29 100.0 47 ............................. GCTAAATTAATGAAGGCGAGCCTCAGAGAATACACTGGGAACAAAAC 11447 29 100.0 32 ............................. TTAACGTAACAGTGTATTTTTTGTCCCCGTTG 11386 29 100.0 32 ............................. CAAAAGGCCGACGGTGTGTACACCTCTAAAAA 11325 29 96.6 0 ............T................ | A [11298] ========== ====== ====== ====== ============================= =============================================== ================== 24 29 98.0 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCGCCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCCTTGGGGGATAGCGGCCATCGGGGGCATAGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGTGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGTTGCGGGAATGCCGTCATGGCCTGGGCGACCAACACGGAATCAGGATTTGAGTTTCAGACATGGGGTGAAAACCGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGCGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGTGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.04 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 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: 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 [4-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-70.0]%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 29603-28843 **** Predicted by CRISPRDetect 2.4 *** >NZ_NPLX01000005.1 Salmonella enterica subsp. enterica serovar Bergen strain CFSAN059892 CFSAN059892_5, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 29602 29 93.1 32 ..G.........................C GTATTCTGCGGAAATAATCGGCGTTGTCGGCC 29541 29 100.0 32 ............................. CCTAGCTGTGGAATATTTAGATAAACATTAGC 29480 29 100.0 32 ............................. CAGGCGCAGGGGCGCGAGTGTACCGTTCGTAT 29419 29 100.0 32 ............................. CCTATATTCTGGAGTTCGGTGATAAATATATT 29358 29 100.0 32 ............................. GTTTACGGGCCGGAATTACCGCGACCATATGC 29297 29 100.0 32 ............................. TGGTCACTCCCGCGCTGAATCCGATCTGCAAA 29236 29 100.0 32 ............................. CAATTGCGTTCTTGCTTATGCCCAGCGACTTA 29175 29 93.1 32 ..G.........T................ ATTTCAAACACTCCGGGTCTGCCAGCGCCTCA 29114 29 96.6 32 ..G.......................... TATACAGGATTCTCACACTTTGGTTTGGTCGA 29053 29 96.6 32 ..G.......................... CGGAAACAAACAAAGTTTTGCGCGATTCCACC 28992 29 96.6 32 ..G.......................... CACCAGGTAACAATATCGTCCCCGACCTTTAT 28931 29 96.6 32 ..G.......................... GCGAAATTCCCCAGATACCGCGCATCGGCACT 28870 28 86.2 0 ..G.........T...........G-... | ========== ====== ====== ====== ============================= ================================ ================== 13 29 96.8 32 GTATTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCGCGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGCGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTCGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGCAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 5.87 # Score Detail : 1:0, 2:3, 3:0, 4:0.84, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.77, # 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 : GTATTCCCCGCGCCAGCGGGGATAAACCG # Alternate repeat : GTGTTCCCCGCGCCAGCGGGGATAAACCG # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: R [4,6] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTATTCCCCGCGCCAGCGGGGATAAACCG 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 [4-2] 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], //