Array 1 424324-425633 **** Predicted by CRISPRDetect 2.4 *** >NZ_NPLG01000002.1 Salmonella enterica strain CFSAN060812 CFSAN060811_2, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 424324 29 100.0 32 ............................. CCTTCGTTATTTACGACATTAACATTAACCGT 424385 29 100.0 32 ............................. CTTAATGCTTTTTCGTCCGCCCATAGAAATAA 424446 29 96.6 33 ...................A......... GTATCAAAGGTCATCAGGTGTTCGCCTTTCAGC 424508 29 96.6 32 ............................A GCAGATTGGTATCTGGTACGACGACTGCCGCC 424569 29 100.0 32 ............................. ACTGTTAAAATGCTTCAGGACGGTGAAGTAAA 424630 29 100.0 32 ............................. TCCACTGTACCGCCGACAGGACTTTTTAACGT 424691 29 100.0 32 ............................. CGCAGGCGCTGGACGCGCTGCACAGACAGTCC 424752 29 100.0 32 ............................. GTGCGGTCGAGGTGGCGAGGTTGATAGCAGTA 424813 29 100.0 32 ............................. CGAATATGTTGATCGGGATTCTGGCCGCACTG 424874 29 100.0 32 ............................. CGTTTATCGCTCTGAGAGTGGCGCTCGTTACT 424935 29 100.0 32 ............................. GCGCTGACCATGATTGCAGTCAGGGTCGGCAT 424996 29 100.0 32 ............................. GGGGAATGATGAAACGAATTAGTAAAAACAAA 425057 29 100.0 32 ............................. AAATGGCATAGCCACCCCAGACAGTGGCTTCT 425118 29 100.0 32 ............................. GACCGATCCGGGAACAACCGGAACAACGCGGG 425179 29 100.0 32 ............................. CCAGTAACGCTGGCGTGATAATTTTGGTCGCC 425240 29 100.0 32 ............................. CAATACGACTGGACTGGATTTGATTCATTAAC 425301 29 100.0 32 ............................. CAGAGCCTGGAGCTCTCGACTCCTGATTTTGG 425362 29 100.0 32 ............................. GGGTAACGTCCTTTGCTGGTGTTTTTGTGTCT 425423 29 100.0 32 ............................. AAACACCAACATTACGGCACGCAAGAGGTTAT 425484 29 96.6 32 ........T.................... GTTGGAGGGCGGTTCTGATGGCGAAACTTATC 425545 29 100.0 32 ............................. TACCAACAATTCAGCGTTACGCCAACGGTAAC 425606 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 2 435397-436097 **** Predicted by CRISPRDetect 2.4 *** >NZ_NPLG01000002.1 Salmonella enterica strain CFSAN060812 CFSAN060811_2, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 435397 29 100.0 32 ............................. CGGGTGATTTTAATGATGTGCTGACTACCGGC 435458 29 100.0 32 ............................. GCGTTCTACAGTAAGGTTTACAGCCTGAGCAA 435519 29 100.0 32 ............................. GTACGGAAATTTGTGTCAGATATTGCCGGGAA 435580 29 100.0 32 ............................. TGCCCACAGTTCGTCGTGAATTGCGCAGGATA 435641 29 100.0 32 ............................. GTTCTCAATAAATTTTCCCGGCTGCCGGATCT 435702 29 100.0 32 ............................. ATTGGGACCATTCCAATGGTCAGTTTCACGGA 435763 29 100.0 32 ............................. AAACCAGAATTGCTGAAGTAAATTGCAAAAGA 435824 29 100.0 32 ............................. ATATCGAACGGGTTACGGCTGTCGGTGTAACT 435885 29 96.6 32 ............T................ ATATTTTGGCAACTCGTCGTACATTATCGCCA 435946 29 100.0 32 ............................. TCGCACAACGCCTGGATATCCGCCCATCGGCC 436007 29 100.0 32 ............................. TCTTTGTGGTAAATATGGAATCGATTAACCCC 436068 29 100.0 0 ............................. | A [436095] ========== ====== ====== ====== ============================= ================================ ================== 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], //