Array 1 472175-473484 **** Predicted by CRISPRDetect 2.4 *** >NZ_QDPP01000001.1 Salmonella enterica subsp. enterica serovar Mbandaka strain 129 NODE_1_length_480877_cov_20.2273, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 472175 29 100.0 32 ............................. CCTTCGTTATTTACGACATTAACATTAACCGT 472236 29 100.0 32 ............................. CTTAATGCTTTTTCGTCCGCCCATAGAAATAA 472297 29 96.6 33 ...................A......... GTATCAAAGGTCATCAGGTGTTCGCCTTTCAGC 472359 29 96.6 32 ............................A GCAGATTGGTATCTGGTACGACGACTGCCGCC 472420 29 100.0 32 ............................. ACTGTTAAAATGCTTCAGGACGGTGAAGTAAA 472481 29 100.0 32 ............................. TCCACTGTACCGCCGACAGGACTTTTTAACGT 472542 29 100.0 32 ............................. CGCAGGCGCTGGACGCGCTGCACAGACAGTCC 472603 29 100.0 32 ............................. GTGCGGTCGAGGTGGCGAGGTTGATAGCAGTA 472664 29 100.0 32 ............................. CGAATATGTTGATCGGGATTCTGGCCGCACTG 472725 29 100.0 32 ............................. CGTTTATCGCTCTGAGAGTGGCGCTCGTTACT 472786 29 100.0 32 ............................. GCGCTGACCATGATTGCAGTCAGGGTCGGCAT 472847 29 100.0 32 ............................. GGGGAATGATGAAACGAATTAGTAAAAACAAA 472908 29 100.0 32 ............................. AAATGGCATAGCCACCCCAGACAGTGGCTTCT 472969 29 100.0 32 ............................. GACCGATCCGGGAACAACCGGAACAACGCGGG 473030 29 100.0 32 ............................. CCAGTAACGCTGGCGTGATAATTTTGGTCGCC 473091 29 100.0 32 ............................. CAATACGACTGGACTGGATTTGATTCATTAAC 473152 29 100.0 32 ............................. CAGAGCCTGGAGCTCTCGACTCCTGATTTTGG 473213 29 100.0 32 ............................. GGGTAACGTCCTTTGCTGGTGTTTTTGTGTCT 473274 29 100.0 32 ............................. AAACACCAACATTACGGCACGCAAGAGGTTAT 473335 29 96.6 32 ........T.................... GTTGGAGGGCGGTTCTGATGGCGAAACTTATC 473396 29 100.0 32 ............................. TACCAACAATTCAGCGTTACGCCAACGGTAAC 473457 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 22 29 98.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATTGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTTATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCGGATAAATTTTTCCATAGCGATGCATGGATCACACTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGAGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGGAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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 [2-6] 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 1 2213-2913 **** Predicted by CRISPRDetect 2.4 *** >NZ_QDPP01000009.1 Salmonella enterica subsp. enterica serovar Mbandaka strain 129 NODE_9_length_179184_cov_19.234, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 2213 29 100.0 32 ............................. CGGGTGATTTTAATGATGTGCTGACTACCGGC 2274 29 100.0 32 ............................. GCGTTCTACAGTAAGGTTTACAGCCTGAGCAA 2335 29 100.0 32 ............................. GTACGGAAATTTGTGTCAGATATTGCCGGGAA 2396 29 100.0 32 ............................. TGCCCACAGTTCGTCGTGAATTGCGCAGGATA 2457 29 100.0 32 ............................. GTTCTCAATAAATTTTCCCGGCTGCCGGATCT 2518 29 100.0 32 ............................. ATTGGGACCATTCCAATGGTCAGTTTCACGGA 2579 29 100.0 32 ............................. AAACCAGAATTGCTGAAGTAAATTGCAAAAGA 2640 29 100.0 32 ............................. ATATCGAACGGGTTACGGCTGTCGGTGTAACT 2701 29 96.6 32 ............T................ ATATTTTGGCAACTCGTCGTACATTATCGCCA 2762 29 100.0 32 ............................. TCGCACAACGCCTGGATATCCGCCCATCGGCC 2823 29 100.0 32 ............................. TCTTTGTGGTAAATATGGAATCGATTAACCCC 2884 29 100.0 0 ............................. | A [2911] ========== ====== ====== ====== ============================= ================================ ================== 12 29 99.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTGATTTCTCAGCGGGTTGATACACGCAAAGAGGTTGAGCGCAGCGTAGATATTGGCTGGCTACATAGTGAAGAGGCGTGTCTTGAACATATAGGTGAAGCAGTGGAAAAAGGAAACTGTATCGCCTGGATACGTAACTCCGTTGATGATGCGATTCGTATCTATCGCCAGCTTCAACTGAGTAAGGTCGTCGCCACGGAAAACCTTTTACTCTTCCATAGTCGCTTTGCTTTTCACGATCGTCAGCGGATTGAGTCGCAGACGCTGAATCTCTTTGGCAAACAGAGCGGCGCGCAACGTGCCGGTAAGGTCATTATCGCCACGCAGGTCATCGAACAAAGTCTGGATATTGACTGCGATGAGATGATCTCTGATTTAGCGCCGGTGGATTTATTAATTCAGCGGGCCGGTCGACTACAGCGTCATATTCGCGATCGTAACGGTCTGGTGAAAAAGAGTGGGCAGGATGAGCGAGAGACGCTAGTGCTGCGCATTCTTGC # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 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 [0-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [43.3-48.3]%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], //