Array 1 3019963-3017981 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCLL01000006.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL03309 2014LSAL03309_6, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 3019962 29 100.0 32 ............................. TTGAGGTTTGCGTTGAGCCTGTTCAGCATCAC 3019901 29 96.6 32 ............................C GCTGACTCTGCGGCGGATCTTCTCAACCAGTC 3019840 29 100.0 32 ............................. CCTAGAAAAGTTTGTTTAGGCAATCAAGCCCC 3019779 29 100.0 32 ............................. GTGTTAATTAATGAGTTTATTCCGTTTTAACA 3019718 29 100.0 32 ............................. AAATTTGGTTGACAGTAAAAGAGTGTGTCGGT 3019657 29 100.0 32 ............................. TCGGCTCGAGCACTTGCGACAACAAACACACG 3019596 29 100.0 32 ............................. GCGTTGAACTTGATATTCTCTACACCGATGCA 3019535 29 96.6 32 ..C.......................... ATATGAGGCAGCTCGCTGGCGGCTGGGATGGT 3019474 29 100.0 32 ............................. CCGTTTTTTTCCCACAGTTTGCCACCGAGACG 3019413 29 100.0 32 ............................. TTAAGTCGCTCTTTGTACGCTACACCGGAGGC 3019352 29 100.0 32 ............................. AAATATCCAGAGCTGGGCTTGAGGCTGACGGT 3019291 29 100.0 32 ............................. TAATTGACATACATTCACCATATTAAGGAAGA 3019230 29 100.0 32 ............................. CCATGCGCGGCGGCGCTTGCCCAGCTCAGAAA 3019169 29 100.0 32 ............................. GTAGTCTTCATATGCAGCGACATCATTGCCGA 3019108 29 100.0 32 ............................. GTCATTTTCTTGTTAATGGCGCTTGCATTAAC 3019047 29 100.0 32 ............................. CTGTGTGGTCTGTGCATAACGGTGTAACAGAG 3018986 29 100.0 32 ............................. AAAAATAGTCCTGAACGATAGCCCGCGCGGTC 3018925 29 100.0 32 ............................. CAGGAGTGGCTGGAGACTGTCGTCAAGCCTGA 3018864 29 100.0 32 ............................. GACCTATCAGCCTAATTTCCGGGGCAAGAGCT 3018803 29 100.0 32 ............................. ATTACGGGATAATAGTTTTGGTAATGGGTTGC 3018742 29 100.0 32 ............................. CCGCCAATATAAAGAACACTTTTATTTAAATA 3018681 29 100.0 32 ............................. GCGTTTATTTTTGATTTGTTATTTGGACGTTA 3018620 29 100.0 32 ............................. TTCCGGTCCTGCCCACTATTCGACAAAATCAG 3018559 29 100.0 32 ............................. GCTGATATCCGCCTGATTGGTGATCTGCGTCG 3018498 29 100.0 32 ............................. AATCCACATCCTGTTTAGCTCCATATAGCCCC 3018437 29 100.0 32 ............................. CCGAATTTCTCCGCGAACGCCCACCAGTCGCG 3018376 29 100.0 32 ............................. AGTTCGCCAGCGGTGCCCGCGATCTGGAGCTG 3018315 29 100.0 32 ............................. TCGCTTATCTTGAAATCGTCATCGGTCAGACC 3018254 29 100.0 32 ............................. GATCATCACCCAGGCATTTTCTGGAATATGAA 3018193 29 100.0 32 ............................. AATCCCGATGATCATGAATATTTCTGGCGCCA 3018132 29 100.0 32 ............................. GCAGAAACAGAAACCGGATATGAGCCATCCAT 3018071 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 3018010 29 96.6 0 A............................ | A [3017983] ========== ====== ====== ====== ============================= ================================ ================== 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 3037899-3036221 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCLL01000006.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL03309 2014LSAL03309_6, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3037898 29 100.0 32 ............................. AGCGCCGATCCGGTGGTGTCCAACACAACGAA 3037837 29 100.0 32 ............................. GCTTCTGATTGCATTAGCTCCAAATCAGTACC 3037776 29 100.0 32 ............................. GCGTCAGGCGTGGTGGCCGTGATTACGGACGA 3037715 29 100.0 32 ............................. GCGTGCGCCGGGATATTGCGCCGCGCCGAGAA 3037654 29 100.0 32 ............................. GGCTAACCCATGAACACTATTACCAAATTCAC 3037593 29 100.0 32 ............................. GTTGCCGCCCTTACTGCGCGAGGCGTTGGAAC 3037532 29 100.0 32 ............................. GAGGGGCCGTCTGCCGCATATCAAACGCTATC 3037471 29 100.0 32 ............................. CAACACGAAAGAAAAAATACTCAATATTATTG 3037410 29 100.0 32 ............................. AAAATCATCATGGCCAGCGCTGGCGCGCTCGC 3037349 29 100.0 32 ............................. AATGATTATATCGATCGACCAATCGATGAGCA 3037288 29 100.0 32 ............................. TCGGTGAGACAAATCATTCCAGATTGATCAAC 3037227 29 100.0 32 ............................. AATTTAAACAGTAATTTAAAATTGTTAGCGTC 3037166 29 100.0 33 ............................. GCAACGGCGGCGCGGCATTCTGCGGTGCAAATA 3037104 29 100.0 32 ............................. GATTCCAGCGCGCCAAAATCAGGAGATTCCGT 3037043 29 100.0 32 ............................. CCCCCGGCATTCGGCTATGCCTATTCATATGT 3036982 29 100.0 32 ............................. TGGTCACTACCGTCTATCTCTTCCGGATACAC 3036921 29 100.0 32 ............................. CTTGCAGCCGAATACGGTATAGAGTGGGACGG 3036860 29 100.0 33 ............................. GCCTGTCCTGCGTCAGCGTTACCAGCTTCATGC 3036798 29 100.0 32 ............................. AAATTCAATTACGACTCGCTGCCTGACGGGGT 3036737 29 100.0 32 ............................. ATTTTGAGCGGACGGGAGCTGGCCGAATGACC 3036676 29 100.0 33 ............................. CGGTTTTTACTTTTGCTGCATTCCGCCTCCCGG 3036614 29 100.0 32 ............................. TCCTGGCAGGAATACAAACTTGTGATGCTGCG 3036553 29 96.6 32 .............T............... ACCGCAGGCGCAGCGGCAATATTCTGGTTCAA 3036492 29 96.6 32 .............T............... TCGTTTCTGGGAGCGGGTCTTTCCAGTATTGC 3036431 29 96.6 32 ...........C................. CAGGGGAAGAGGTTCCGGCCCAGCAGTTCTAT 3036370 29 100.0 32 ............................. CTGCTGGGTCGTGTTTGACTCAACGCTCCCCA 3036309 29 100.0 32 ............................. ATTTTAGAATTACGCATTGAGCCGATGATGTA 3036248 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], //