Array 1 2912714-2910732 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCKY01000001.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL03398 2014LSAL03398_1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 2912713 29 100.0 32 ............................. TTGAGGTTTGCGTTGAGCCTGTTCAGCATCAC 2912652 29 96.6 32 ............................C GCTGACTCTGCGGCGGATCTTCTCAACCAGTC 2912591 29 100.0 32 ............................. CCTAGAAAAGTTTGTTTAGGCAATCAAGCCCC 2912530 29 100.0 32 ............................. GTGTTAATTAATGAGTTTATTCCGTTTTAACA 2912469 29 100.0 32 ............................. AAATTTGGTTGACAGTAAAAGAGTGTGTCGGT 2912408 29 100.0 32 ............................. TCGGCTCGAGCACTTGCGACAACAAACACACG 2912347 29 100.0 32 ............................. GCGTTGAACTTGATATTCTCTACACCGATGCA 2912286 29 96.6 32 ..C.......................... ATATGAGGCAGCTCGCTGGCGGCTGGGATGGT 2912225 29 100.0 32 ............................. CCGTTTTTTTCCCACAGTTTGCCACCGAGACG 2912164 29 100.0 32 ............................. TTAAGTCGCTCTTTGTACGCTACACCGGAGGC 2912103 29 100.0 32 ............................. AAATATCCAGAGCTGGGCTTGAGGCTGACGGT 2912042 29 100.0 32 ............................. TAATTGACATACATTCACCATATTAAGGAAGA 2911981 29 100.0 32 ............................. CCATGCGCGGCGGCGCTTGCCCAGCTCAGAAA 2911920 29 100.0 32 ............................. GTAGTCTTCATATGCAGCGACATCATTGCCGA 2911859 29 100.0 32 ............................. GTCATTTTCTTGTTAATGGCGCTTGCATTAAC 2911798 29 100.0 32 ............................. CTGTGTGGTCTGTGCATAACGGTGTAACAGAG 2911737 29 100.0 32 ............................. AAAAATAGTCCTGAACGATAGCCCGCGCGGTC 2911676 29 100.0 32 ............................. CAGGAGTGGCTGGAGACTGTCGTCAAGCCTGA 2911615 29 100.0 32 ............................. GACCTATCAGCCTAATTTCCGGGGCAAGAGCT 2911554 29 100.0 32 ............................. ATTACGGGATAATAGTTTTGGTAATGGGTTGC 2911493 29 100.0 32 ............................. CCGCCAATATAAAGAACACTTTTATTTAAATA 2911432 29 100.0 32 ............................. GCGTTTATTTTTGATTTGTTATTTGGACGTTA 2911371 29 100.0 32 ............................. TTCCGGTCCTGCCCACTATTCGACAAAATCAG 2911310 29 100.0 32 ............................. GCTGATATCCGCCTGATTGGTGATCTGCGTCG 2911249 29 100.0 32 ............................. AATCCACATCCTGTTTAGCTCCATATAGCCCC 2911188 29 100.0 32 ............................. CCGAATTTCTCCGCGAACGCCCACCAGTCGCG 2911127 29 100.0 32 ............................. AGTTCGCCAGCGGTGCCCGCGATCTGGAGCTG 2911066 29 100.0 32 ............................. TCGCTTATCTTGAAATCGTCATCGGTCAGACC 2911005 29 100.0 32 ............................. GATCATCACCCAGGCATTTTCTGGAATATGAA 2910944 29 100.0 32 ............................. AATCCCGATGATCATGAATATTTCTGGCGCCA 2910883 29 100.0 32 ............................. GCAGAAACAGAAACCGGATATGAGCCATCCAT 2910822 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 2910761 29 96.6 0 A............................ | A [2910734] ========== ====== ====== ====== ============================= ================================ ================== 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 2930650-2928972 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCKY01000001.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL03398 2014LSAL03398_1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 2930649 29 100.0 32 ............................. AGCGCCGATCCGGTGGTGTCCAACACAACGAA 2930588 29 100.0 32 ............................. GCTTCTGATTGCATTAGCTCCAAATCAGTACC 2930527 29 100.0 32 ............................. GCGTCAGGCGTGGTGGCCGTGATTACGGACGA 2930466 29 100.0 32 ............................. GCGTGCGCCGGGATATTGCGCCGCGCCGAGAA 2930405 29 100.0 32 ............................. GGCTAACCCATGAACACTATTACCAAATTCAC 2930344 29 100.0 32 ............................. GTTGCCGCCCTTACTGCGCGAGGCGTTGGAAC 2930283 29 100.0 32 ............................. GAGGGGCCGTCTGCCGCATATCAAACGCTATC 2930222 29 100.0 32 ............................. CAACACGAAAGAAAAAATACTCAATATTATTG 2930161 29 100.0 32 ............................. AAAATCATCATGGCCAGCGCTGGCGCGCTCGC 2930100 29 100.0 32 ............................. AATGATTATATCGATCGACCAATCGATGAGCA 2930039 29 100.0 32 ............................. TCGGTGAGACAAATCATTCCAGATTGATCAAC 2929978 29 100.0 32 ............................. AATTTAAACAGTAATTTAAAATTGTTAGCGTC 2929917 29 100.0 33 ............................. GCAACGGCGGCGCGGCATTCTGCGGTGCAAATA 2929855 29 100.0 32 ............................. GATTCCAGCGCGCCAAAATCAGGAGATTCCGT 2929794 29 100.0 32 ............................. CCCCCGGCATTCGGCTATGCCTATTCATATGT 2929733 29 100.0 32 ............................. TGGTCACTACCGTCTATCTCTTCCGGATACAC 2929672 29 100.0 32 ............................. CTTGCAGCCGAATACGGTATAGAGTGGGACGG 2929611 29 100.0 33 ............................. GCCTGTCCTGCGTCAGCGTTACCAGCTTCATGC 2929549 29 100.0 32 ............................. AAATTCAATTACGACTCGCTGCCTGACGGGGT 2929488 29 100.0 32 ............................. ATTTTGAGCGGACGGGAGCTGGCCGAATGACC 2929427 29 100.0 33 ............................. CGGTTTTTACTTTTGCTGCATTCCGCCTCCCGG 2929365 29 100.0 32 ............................. TCCTGGCAGGAATACAAACTTGTGATGCTGCG 2929304 29 96.6 32 .............T............... ACCGCAGGCGCAGCGGCAATATTCTGGTTCAA 2929243 29 96.6 32 .............T............... TCGTTTCTGGGAGCGGGTCTTTCCAGTATTGC 2929182 29 96.6 32 ...........C................. CAGGGGAAGAGGTTCCGGCCCAGCAGTTCTAT 2929121 29 100.0 32 ............................. CTGCTGGGTCGTGTTTGACTCAACGCTCCCCA 2929060 29 100.0 32 ............................. ATTTTAGAATTACGCATTGAGCCGATGATGTA 2928999 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], //