Array 1 2913480-2911498 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCKV01000002.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL03407 2014LSAL03407_2, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 2913479 29 100.0 32 ............................. TTGAGGTTTGCGTTGAGCCTGTTCAGCATCAC 2913418 29 96.6 32 ............................C GCTGACTCTGCGGCGGATCTTCTCAACCAGTC 2913357 29 100.0 32 ............................. CCTAGAAAAGTTTGTTTAGGCAATCAAGCCCC 2913296 29 100.0 32 ............................. GTGTTAATTAATGAGTTTATTCCGTTTTAACA 2913235 29 100.0 32 ............................. AAATTTGGTTGACAGTAAAAGAGTGTGTCGGT 2913174 29 100.0 32 ............................. TCGGCTCGAGCACTTGCGACAACAAACACACG 2913113 29 100.0 32 ............................. GCGTTGAACTTGATATTCTCTACACCGATGCA 2913052 29 96.6 32 ..C.......................... ATATGAGGCAGCTCGCTGGCGGCTGGGATGGT 2912991 29 100.0 32 ............................. CCGTTTTTTTCCCACAGTTTGCCACCGAGACG 2912930 29 100.0 32 ............................. TTAAGTCGCTCTTTGTACGCTACACCGGAGGC 2912869 29 100.0 32 ............................. AAATATCCAGAGCTGGGCTTGAGGCTGACGGT 2912808 29 100.0 32 ............................. TAATTGACATACATTCACCATATTAAGGAAGA 2912747 29 100.0 32 ............................. CCATGCGCGGCGGCGCTTGCCCAGCTCAGAAA 2912686 29 100.0 32 ............................. GTAGTCTTCATATGCAGCGACATCATTGCCGA 2912625 29 100.0 32 ............................. GTCATTTTCTTGTTAATGGCGCTTGCATTAAC 2912564 29 100.0 32 ............................. CTGTGTGGTCTGTGCATAACGGTGTAACAGAG 2912503 29 100.0 32 ............................. AAAAATAGTCCTGAACGATAGCCCGCGCGGTC 2912442 29 100.0 32 ............................. CAGGAGTGGCTGGAGACTGTCGTCAAGCCTGA 2912381 29 100.0 32 ............................. GACCTATCAGCCTAATTTCCGGGGCAAGAGCT 2912320 29 100.0 32 ............................. ATTACGGGATAATAGTTTTGGTAATGGGTTGC 2912259 29 100.0 32 ............................. CCGCCAATATAAAGAACACTTTTATTTAAATA 2912198 29 100.0 32 ............................. GCGTTTATTTTTGATTTGTTATTTGGACGTTA 2912137 29 100.0 32 ............................. TTCCGGTCCTGCCCACTATTCGACAAAATCAG 2912076 29 100.0 32 ............................. GCTGATATCCGCCTGATTGGTGATCTGCGTCG 2912015 29 100.0 32 ............................. AATCCACATCCTGTTTAGCTCCATATAGCCCC 2911954 29 100.0 32 ............................. CCGAATTTCTCCGCGAACGCCCACCAGTCGCG 2911893 29 100.0 32 ............................. AGTTCGCCAGCGGTGCCCGCGATCTGGAGCTG 2911832 29 100.0 32 ............................. TCGCTTATCTTGAAATCGTCATCGGTCAGACC 2911771 29 100.0 32 ............................. GATCATCACCCAGGCATTTTCTGGAATATGAA 2911710 29 100.0 32 ............................. AATCCCGATGATCATGAATATTTCTGGCGCCA 2911649 29 100.0 32 ............................. GCAGAAACAGAAACCGGATATGAGCCATCCAT 2911588 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 2911527 29 96.6 0 A............................ | A [2911500] ========== ====== ====== ====== ============================= ================================ ================== 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 2931416-2929738 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCKV01000002.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL03407 2014LSAL03407_2, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 2931415 29 100.0 32 ............................. AGCGCCGATCCGGTGGTGTCCAACACAACGAA 2931354 29 100.0 32 ............................. GCTTCTGATTGCATTAGCTCCAAATCAGTACC 2931293 29 100.0 32 ............................. GCGTCAGGCGTGGTGGCCGTGATTACGGACGA 2931232 29 100.0 32 ............................. GCGTGCGCCGGGATATTGCGCCGCGCCGAGAA 2931171 29 100.0 32 ............................. GGCTAACCCATGAACACTATTACCAAATTCAC 2931110 29 100.0 32 ............................. GTTGCCGCCCTTACTGCGCGAGGCGTTGGAAC 2931049 29 100.0 32 ............................. GAGGGGCCGTCTGCCGCATATCAAACGCTATC 2930988 29 100.0 32 ............................. CAACACGAAAGAAAAAATACTCAATATTATTG 2930927 29 100.0 32 ............................. AAAATCATCATGGCCAGCGCTGGCGCGCTCGC 2930866 29 100.0 32 ............................. AATGATTATATCGATCGACCAATCGATGAGCA 2930805 29 100.0 32 ............................. TCGGTGAGACAAATCATTCCAGATTGATCAAC 2930744 29 100.0 32 ............................. AATTTAAACAGTAATTTAAAATTGTTAGCGTC 2930683 29 100.0 33 ............................. GCAACGGCGGCGCGGCATTCTGCGGTGCAAATA 2930621 29 100.0 32 ............................. GATTCCAGCGCGCCAAAATCAGGAGATTCCGT 2930560 29 100.0 32 ............................. CCCCCGGCATTCGGCTATGCCTATTCATATGT 2930499 29 100.0 32 ............................. TGGTCACTACCGTCTATCTCTTCCGGATACAC 2930438 29 100.0 32 ............................. CTTGCAGCCGAATACGGTATAGAGTGGGACGG 2930377 29 100.0 33 ............................. GCCTGTCCTGCGTCAGCGTTACCAGCTTCATGC 2930315 29 100.0 32 ............................. AAATTCAATTACGACTCGCTGCCTGACGGGGT 2930254 29 100.0 32 ............................. ATTTTGAGCGGACGGGAGCTGGCCGAATGACC 2930193 29 100.0 33 ............................. CGGTTTTTACTTTTGCTGCATTCCGCCTCCCGG 2930131 29 100.0 32 ............................. TCCTGGCAGGAATACAAACTTGTGATGCTGCG 2930070 29 96.6 32 .............T............... ACCGCAGGCGCAGCGGCAATATTCTGGTTCAA 2930009 29 96.6 32 .............T............... TCGTTTCTGGGAGCGGGTCTTTCCAGTATTGC 2929948 29 96.6 32 ...........C................. CAGGGGAAGAGGTTCCGGCCCAGCAGTTCTAT 2929887 29 100.0 32 ............................. CTGCTGGGTCGTGTTTGACTCAACGCTCCCCA 2929826 29 100.0 32 ............................. ATTTTAGAATTACGCATTGAGCCGATGATGTA 2929765 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], //