Array 1 2912465-2910483 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCKO01000003.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL03465 2014LSAL03465-C3_3, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 2912464 29 100.0 32 ............................. TTGAGGTTTGCGTTGAGCCTGTTCAGCATCAC 2912403 29 96.6 32 ............................C GCTGACTCTGCGGCGGATCTTCTCAACCAGTC 2912342 29 100.0 32 ............................. CCTAGAAAAGTTTGTTTAGGCAATCAAGCCCC 2912281 29 100.0 32 ............................. GTGTTAATTAATGAGTTTATTCCGTTTTAACA 2912220 29 100.0 32 ............................. AAATTTGGTTGACAGTAAAAGAGTGTGTCGGT 2912159 29 100.0 32 ............................. TCGGCTCGAGCACTTGCGACAACAAACACACG 2912098 29 100.0 32 ............................. GCGTTGAACTTGATATTCTCTACACCGATGCA 2912037 29 96.6 32 ..C.......................... ATATGAGGCAGCTCGCTGGCGGCTGGGATGGT 2911976 29 100.0 32 ............................. CCGTTTTTTTCCCACAGTTTGCCACCGAGACG 2911915 29 100.0 32 ............................. TTAAGTCGCTCTTTGTACGCTACACCGGAGGC 2911854 29 100.0 32 ............................. AAATATCCAGAGCTGGGCTTGAGGCTGACGGT 2911793 29 100.0 32 ............................. TAATTGACATACATTCACCATATTAAGGAAGA 2911732 29 100.0 32 ............................. CCATGCGCGGCGGCGCTTGCCCAGCTCAGAAA 2911671 29 100.0 32 ............................. GTAGTCTTCATATGCAGCGACATCATTGCCGA 2911610 29 100.0 32 ............................. GTCATTTTCTTGTTAATGGCGCTTGCATTAAC 2911549 29 100.0 32 ............................. CTGTGTGGTCTGTGCATAACGGTGTAACAGAG 2911488 29 100.0 32 ............................. AAAAATAGTCCTGAACGATAGCCCGCGCGGTC 2911427 29 100.0 32 ............................. CAGGAGTGGCTGGAGACTGTCGTCAAGCCTGA 2911366 29 100.0 32 ............................. GACCTATCAGCCTAATTTCCGGGGCAAGAGCT 2911305 29 100.0 32 ............................. ATTACGGGATAATAGTTTTGGTAATGGGTTGC 2911244 29 100.0 32 ............................. CCGCCAATATAAAGAACACTTTTATTTAAATA 2911183 29 100.0 32 ............................. GCGTTTATTTTTGATTTGTTATTTGGACGTTA 2911122 29 100.0 32 ............................. TTCCGGTCCTGCCCACTATTCGACAAAATCAG 2911061 29 100.0 32 ............................. GCTGATATCCGCCTGATTGGTGATCTGCGTCG 2911000 29 100.0 32 ............................. AATCCACATCCTGTTTAGCTCCATATAGCCCC 2910939 29 100.0 32 ............................. CCGAATTTCTCCGCGAACGCCCACCAGTCGCG 2910878 29 100.0 32 ............................. AGTTCGCCAGCGGTGCCCGCGATCTGGAGCTG 2910817 29 100.0 32 ............................. TCGCTTATCTTGAAATCGTCATCGGTCAGACC 2910756 29 100.0 32 ............................. GATCATCACCCAGGCATTTTCTGGAATATGAA 2910695 29 100.0 32 ............................. AATCCCGATGATCATGAATATTTCTGGCGCCA 2910634 29 100.0 32 ............................. GCAGAAACAGAAACCGGATATGAGCCATCCAT 2910573 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 2910512 29 96.6 0 A............................ | A [2910485] ========== ====== ====== ====== ============================= ================================ ================== 33 29 99.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCCCCTCAGCCTGCGTCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTCAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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: 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 [2-2] 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 2930401-2928723 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCKO01000003.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL03465 2014LSAL03465-C3_3, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 2930400 29 100.0 32 ............................. AGCGCCGATCCGGTGGTGTCCAACACAACGAA 2930339 29 100.0 32 ............................. GCTTCTGATTGCATTAGCTCCAAATCAGTACC 2930278 29 100.0 32 ............................. GCGTCAGGCGTGGTGGCCGTGATTACGGACGA 2930217 29 100.0 32 ............................. GCGTGCGCCGGGATATTGCGCCGCGCCGAGAA 2930156 29 100.0 32 ............................. GGCTAACCCATGAACACTATTACCAAATTCAC 2930095 29 100.0 32 ............................. GTTGCCGCCCTTACTGCGCGAGGCGTTGGAAC 2930034 29 100.0 32 ............................. GAGGGGCCGTCTGCCGCATATCAAACGCTATC 2929973 29 100.0 32 ............................. CAACACGAAAGAAAAAATACTCAATATTATTG 2929912 29 100.0 32 ............................. AAAATCATCATGGCCAGCGCTGGCGCGCTCGC 2929851 29 100.0 32 ............................. AATGATTATATCGATCGACCAATCGATGAGCA 2929790 29 100.0 32 ............................. TCGGTGAGACAAATCATTCCAGATTGATCAAC 2929729 29 100.0 32 ............................. AATTTAAACAGTAATTTAAAATTGTTAGCGTC 2929668 29 100.0 33 ............................. GCAACGGCGGCGCGGCATTCTGCGGTGCAAATA 2929606 29 100.0 32 ............................. GATTCCAGCGCGCCAAAATCAGGAGATTCCGT 2929545 29 100.0 32 ............................. CCCCCGGCATTCGGCTATGCCTATTCATATGT 2929484 29 100.0 32 ............................. TGGTCACTACCGTCTATCTCTTCCGGATACAC 2929423 29 100.0 32 ............................. CTTGCAGCCGAATACGGTATAGAGTGGGACGG 2929362 29 100.0 33 ............................. GCCTGTCCTGCGTCAGCGTTACCAGCTTCATGC 2929300 29 100.0 32 ............................. AAATTCAATTACGACTCGCTGCCTGACGGGGT 2929239 29 100.0 32 ............................. ATTTTGAGCGGACGGGAGCTGGCCGAATGACC 2929178 29 100.0 33 ............................. CGGTTTTTACTTTTGCTGCATTCCGCCTCCCGG 2929116 29 100.0 32 ............................. TCCTGGCAGGAATACAAACTTGTGATGCTGCG 2929055 29 96.6 32 .............T............... ACCGCAGGCGCAGCGGCAATATTCTGGTTCAA 2928994 29 96.6 32 .............T............... TCGTTTCTGGGAGCGGGTCTTTCCAGTATTGC 2928933 29 96.6 32 ...........C................. CAGGGGAAGAGGTTCCGGCCCAGCAGTTCTAT 2928872 29 100.0 32 ............................. CTGCTGGGTCGTGTTTGACTCAACGCTCCCCA 2928811 29 100.0 32 ............................. ATTTTAGAATTACGCATTGAGCCGATGATGTA 2928750 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 28 29 99.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTCGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 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: 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], //