Array 1 2912675-2910693 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCKK01000001.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL03521 2014LSAL03521_1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 2912674 29 100.0 32 ............................. TTGAGGTTTGCGTTGAGCCTGTTCAGCATCAC 2912613 29 96.6 32 ............................C GCTGACTCTGCGGCGGATCTTCTCAACCAGTC 2912552 29 100.0 32 ............................. CCTAGAAAAGTTTGTTTAGGCAATCAAGCCCC 2912491 29 100.0 32 ............................. GTGTTAATTAATGAGTTTATTCCGTTTTAACA 2912430 29 100.0 32 ............................. AAATTTGGTTGACAGTAAAAGAGTGTGTCGGT 2912369 29 100.0 32 ............................. TCGGCTCGAGCACTTGCGACAACAAACACACG 2912308 29 100.0 32 ............................. GCGTTGAACTTGATATTCTCTACACCGATGCA 2912247 29 96.6 32 ..C.......................... ATATGAGGCAGCTCGCTGGCGGCTGGGATGGT 2912186 29 100.0 32 ............................. CCGTTTTTTTCCCACAGTTTGCCACCGAGACG 2912125 29 100.0 32 ............................. TTAAGTCGCTCTTTGTACGCTACACCGGAGGC 2912064 29 100.0 32 ............................. AAATATCCAGAGCTGGGCTTGAGGCTGACGGT 2912003 29 100.0 32 ............................. TAATTGACATACATTCACCATATTAAGGAAGA 2911942 29 100.0 32 ............................. CCATGCGCGGCGGCGCTTGCCCAGCTCAGAAA 2911881 29 100.0 32 ............................. GTAGTCTTCATATGCAGCGACATCATTGCCGA 2911820 29 100.0 32 ............................. GTCATTTTCTTGTTAATGGCGCTTGCATTAAC 2911759 29 100.0 32 ............................. CTGTGTGGTCTGTGCATAACGGTGTAACAGAG 2911698 29 100.0 32 ............................. AAAAATAGTCCTGAACGATAGCCCGCGCGGTC 2911637 29 100.0 32 ............................. CAGGAGTGGCTGGAGACTGTCGTCAAGCCTGA 2911576 29 100.0 32 ............................. GACCTATCAGCCTAATTTCCGGGGCAAGAGCT 2911515 29 100.0 32 ............................. ATTACGGGATAATAGTTTTGGTAATGGGTTGC 2911454 29 100.0 32 ............................. CCGCCAATATAAAGAACACTTTTATTTAAATA 2911393 29 100.0 32 ............................. GCGTTTATTTTTGATTTGTTATTTGGACGTTA 2911332 29 100.0 32 ............................. TTCCGGTCCTGCCCACTATTCGACAAAATCAG 2911271 29 100.0 32 ............................. GCTGATATCCGCCTGATTGGTGATCTGCGTCG 2911210 29 100.0 32 ............................. AATCCACATCCTGTTTAGCTCCATATAGCCCC 2911149 29 100.0 32 ............................. CCGAATTTCTCCGCGAACGCCCACCAGTCGCG 2911088 29 100.0 32 ............................. AGTTCGCCAGCGGTGCCCGCGATCTGGAGCTG 2911027 29 100.0 32 ............................. TCGCTTATCTTGAAATCGTCATCGGTCAGACC 2910966 29 100.0 32 ............................. GATCATCACCCAGGCATTTTCTGGAATATGAA 2910905 29 100.0 32 ............................. AATCCCGATGATCATGAATATTTCTGGCGCCA 2910844 29 100.0 32 ............................. GCAGAAACAGAAACCGGATATGAGCCATCCAT 2910783 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 2910722 29 96.6 0 A............................ | A [2910695] ========== ====== ====== ====== ============================= ================================ ================== 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 2930611-2928933 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCKK01000001.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL03521 2014LSAL03521_1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 2930610 29 100.0 32 ............................. AGCGCCGATCCGGTGGTGTCCAACACAACGAA 2930549 29 100.0 32 ............................. GCTTCTGATTGCATTAGCTCCAAATCAGTACC 2930488 29 100.0 32 ............................. GCGTCAGGCGTGGTGGCCGTGATTACGGACGA 2930427 29 100.0 32 ............................. GCGTGCGCCGGGATATTGCGCCGCGCCGAGAA 2930366 29 100.0 32 ............................. GGCTAACCCATGAACACTATTACCAAATTCAC 2930305 29 100.0 32 ............................. GTTGCCGCCCTTACTGCGCGAGGCGTTGGAAC 2930244 29 100.0 32 ............................. GAGGGGCCGTCTGCCGCATATCAAACGCTATC 2930183 29 100.0 32 ............................. CAACACGAAAGAAAAAATACTCAATATTATTG 2930122 29 100.0 32 ............................. AAAATCATCATGGCCAGCGCTGGCGCGCTCGC 2930061 29 100.0 32 ............................. AATGATTATATCGATCGACCAATCGATGAGCA 2930000 29 100.0 32 ............................. TCGGTGAGACAAATCATTCCAGATTGATCAAC 2929939 29 100.0 32 ............................. AATTTAAACAGTAATTTAAAATTGTTAGCGTC 2929878 29 100.0 33 ............................. GCAACGGCGGCGCGGCATTCTGCGGTGCAAATA 2929816 29 100.0 32 ............................. GATTCCAGCGCGCCAAAATCAGGAGATTCCGT 2929755 29 100.0 32 ............................. CCCCCGGCATTCGGCTATGCCTATTCATATGT 2929694 29 100.0 32 ............................. TGGTCACTACCGTCTATCTCTTCCGGATACAC 2929633 29 100.0 32 ............................. CTTGCAGCCGAATACGGTATAGAGTGGGACGG 2929572 29 100.0 33 ............................. GCCTGTCCTGCGTCAGCGTTACCAGCTTCATGC 2929510 29 100.0 32 ............................. AAATTCAATTACGACTCGCTGCCTGACGGGGT 2929449 29 100.0 32 ............................. ATTTTGAGCGGACGGGAGCTGGCCGAATGACC 2929388 29 100.0 33 ............................. CGGTTTTTACTTTTGCTGCATTCCGCCTCCCGG 2929326 29 100.0 32 ............................. TCCTGGCAGGAATACAAACTTGTGATGCTGCG 2929265 29 96.6 32 .............T............... ACCGCAGGCGCAGCGGCAATATTCTGGTTCAA 2929204 29 96.6 32 .............T............... TCGTTTCTGGGAGCGGGTCTTTCCAGTATTGC 2929143 29 96.6 32 ...........C................. CAGGGGAAGAGGTTCCGGCCCAGCAGTTCTAT 2929082 29 100.0 32 ............................. CTGCTGGGTCGTGTTTGACTCAACGCTCCCCA 2929021 29 100.0 32 ............................. ATTTTAGAATTACGCATTGAGCCGATGATGTA 2928960 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], //