Array 1 234090-234281 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCLF01000003.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL03355 2014LSAL03355_3, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ====================================== ======================================= ================== 234090 38 100.0 39 ...................................... ATTCATGACTGGGGTGAAGTCGTAACAAGGTAACCGTAG 234167 38 100.0 39 ...................................... GCGTACTTTGCAGTGCTCACACAGATTGTCTGATGAAAA 234244 38 100.0 0 ...................................... | ========== ====== ====== ====== ====================================== ======================================= ================== 3 38 100.0 40 GGGAACCTGCGGTTGGATCACCTCCTTACCTTAAAGAA # Left flank : GATGCGGAAGTGCCTTCGGGAACTGTGAGACAGGTGCTGCATGGCTGTCGTCAGCTCGTGTTGTGAAATGTTGGGTTAAGTCCCGCAACGAGCGCAACCCTTATCCTTTGTTGCCAGCGATTAGGTCGGGAACTCAAAGGAGACTGCCAGTGATAAACTGGAGGAAGGTGGGGATGACGTCAAGTCATCATGGCCCTTACGACCAGGGCTACACACGTGCTACAATGGCGCATACAAAGAGAAGCGACCTCGCGAGAGCAAGCGGACCTCATAAAGTGCGTCGTAGTCCGGATTGGAGTCTGCAACTCGACTCCATGAAGTCGGAATCGCTAGTAATCGTGGATCAGAATGCCACGGTGAATACGTTCCCGGGCCTTGTACACACCGCCCGTCACACCATGGGAGTGGGTTGCAAAAGAAGTAGGTAGCTTAACCTTCGGGAGGGCGCTTACCACTTTGTGATTCATGACTGGGGTGAAGTCGTAACAAGGTAACCGTAG # Right flank : AGCGTACTTTGCAGTGCTCACACAGATTGTCTGATGAAAAACGAGCAGTAAAACCTCTACAGGCTTGTAGCTCAGGTGGTTAGAGCGCACCCCTGATAAGGGTGAGGTCGGTGGTTCAAGTCCACTCAGGCCTACCAGATTTTCCCTGAATACTGCGTTGTGAAATAACTCACATACTGATGTATGCTTCGTTATTCCACGCCTTGTCTCAGGAAAAATTATCGGTAAAGAGGTTCTGACTACACGATGGGGCTATAGCTCAGCTGGGAGAGCGCCTGCTTTGCACGCAGGAGGTCTGCGGTTCGATCCCGCATAGCTCCACCATCTCGTGAGTGTTTACGAAAAAATACTTCAGAGTGTACCTGAAAGGGTTCACTGCGAAGTTTTGCTCTTTAAAAATCTGGATCAAGCTGAAAATTGAAACACAGAACAACGAAAGTTGTTCGTGAGTCTCTCAAATTTTCGCAGCACGATGATGAATCGTAAGAAACATCTTCGGG # Questionable array : NO Score: 2.67 # Score Detail : 1:0, 2:0, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.02, 8:0.4, 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 : GGGAACCTGCGGTTGGATCACCTCCTTACCTTAAAGAA # 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: F [10,9] Score: 0.37/0.37 # Reference repeat match prediction: NA # Secondary Structural analysis prediction: NA [-5.00,-5.10] Score: 0/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [50.0-56.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.37,0 Confidence: MEDIUM] # Array family : NA // Array 2 2913699-2911717 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCLF01000003.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL03355 2014LSAL03355_3, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 2913698 29 100.0 32 ............................. TTGAGGTTTGCGTTGAGCCTGTTCAGCATCAC 2913637 29 96.6 32 ............................C GCTGACTCTGCGGCGGATCTTCTCAACCAGTC 2913576 29 100.0 32 ............................. CCTAGAAAAGTTTGTTTAGGCAATCAAGCCCC 2913515 29 100.0 32 ............................. GTGTTAATTAATGAGTTTATTCCGTTTTAACA 2913454 29 100.0 32 ............................. AAATTTGGTTGACAGTAAAAGAGTGTGTCGGT 2913393 29 100.0 32 ............................. TCGGCTCGAGCACTTGCGACAACAAACACACG 2913332 29 100.0 32 ............................. GCGTTGAACTTGATATTCTCTACACCGATGCA 2913271 29 96.6 32 ..C.......................... ATATGAGGCAGCTCGCTGGCGGCTGGGATGGT 2913210 29 100.0 32 ............................. CCGTTTTTTTCCCACAGTTTGCCACCGAGACG 2913149 29 100.0 32 ............................. TTAAGTCGCTCTTTGTACGCTACACCGGAGGC 2913088 29 100.0 32 ............................. AAATATCCAGAGCTGGGCTTGAGGCTGACGGT 2913027 29 100.0 32 ............................. TAATTGACATACATTCACCATATTAAGGAAGA 2912966 29 100.0 32 ............................. CCATGCGCGGCGGCGCTTGCCCAGCTCAGAAA 2912905 29 100.0 32 ............................. GTAGTCTTCATATGCAGCGACATCATTGCCGA 2912844 29 100.0 32 ............................. GTCATTTTCTTGTTAATGGCGCTTGCATTAAC 2912783 29 100.0 32 ............................. CTGTGTGGTCTGTGCATAACGGTGTAACAGAG 2912722 29 100.0 32 ............................. AAAAATAGTCCTGAACGATAGCCCGCGCGGTC 2912661 29 100.0 32 ............................. CAGGAGTGGCTGGAGACTGTCGTCAAGCCTGA 2912600 29 100.0 32 ............................. GACCTATCAGCCTAATTTCCGGGGCAAGAGCT 2912539 29 100.0 32 ............................. ATTACGGGATAATAGTTTTGGTAATGGGTTGC 2912478 29 100.0 32 ............................. CCGCCAATATAAAGAACACTTTTATTTAAATA 2912417 29 100.0 32 ............................. GCGTTTATTTTTGATTTGTTATTTGGACGTTA 2912356 29 100.0 32 ............................. TTCCGGTCCTGCCCACTATTCGACAAAATCAG 2912295 29 100.0 32 ............................. GCTGATATCCGCCTGATTGGTGATCTGCGTCG 2912234 29 100.0 32 ............................. AATCCACATCCTGTTTAGCTCCATATAGCCCC 2912173 29 100.0 32 ............................. CCGAATTTCTCCGCGAACGCCCACCAGTCGCG 2912112 29 100.0 32 ............................. AGTTCGCCAGCGGTGCCCGCGATCTGGAGCTG 2912051 29 100.0 32 ............................. TCGCTTATCTTGAAATCGTCATCGGTCAGACC 2911990 29 100.0 32 ............................. GATCATCACCCAGGCATTTTCTGGAATATGAA 2911929 29 100.0 32 ............................. AATCCCGATGATCATGAATATTTCTGGCGCCA 2911868 29 100.0 32 ............................. GCAGAAACAGAAACCGGATATGAGCCATCCAT 2911807 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 2911746 29 96.6 0 A............................ | A [2911719] ========== ====== ====== ====== ============================= ================================ ================== 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 3 2931635-2929957 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCLF01000003.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL03355 2014LSAL03355_3, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 2931634 29 100.0 32 ............................. AGCGCCGATCCGGTGGTGTCCAACACAACGAA 2931573 29 100.0 32 ............................. GCTTCTGATTGCATTAGCTCCAAATCAGTACC 2931512 29 100.0 32 ............................. GCGTCAGGCGTGGTGGCCGTGATTACGGACGA 2931451 29 100.0 32 ............................. GCGTGCGCCGGGATATTGCGCCGCGCCGAGAA 2931390 29 100.0 32 ............................. GGCTAACCCATGAACACTATTACCAAATTCAC 2931329 29 100.0 32 ............................. GTTGCCGCCCTTACTGCGCGAGGCGTTGGAAC 2931268 29 100.0 32 ............................. GAGGGGCCGTCTGCCGCATATCAAACGCTATC 2931207 29 100.0 32 ............................. CAACACGAAAGAAAAAATACTCAATATTATTG 2931146 29 100.0 32 ............................. AAAATCATCATGGCCAGCGCTGGCGCGCTCGC 2931085 29 100.0 32 ............................. AATGATTATATCGATCGACCAATCGATGAGCA 2931024 29 100.0 32 ............................. TCGGTGAGACAAATCATTCCAGATTGATCAAC 2930963 29 100.0 32 ............................. AATTTAAACAGTAATTTAAAATTGTTAGCGTC 2930902 29 100.0 33 ............................. GCAACGGCGGCGCGGCATTCTGCGGTGCAAATA 2930840 29 100.0 32 ............................. GATTCCAGCGCGCCAAAATCAGGAGATTCCGT 2930779 29 100.0 32 ............................. CCCCCGGCATTCGGCTATGCCTATTCATATGT 2930718 29 100.0 32 ............................. TGGTCACTACCGTCTATCTCTTCCGGATACAC 2930657 29 100.0 32 ............................. CTTGCAGCCGAATACGGTATAGAGTGGGACGG 2930596 29 100.0 33 ............................. GCCTGTCCTGCGTCAGCGTTACCAGCTTCATGC 2930534 29 100.0 32 ............................. AAATTCAATTACGACTCGCTGCCTGACGGGGT 2930473 29 100.0 32 ............................. ATTTTGAGCGGACGGGAGCTGGCCGAATGACC 2930412 29 100.0 33 ............................. CGGTTTTTACTTTTGCTGCATTCCGCCTCCCGG 2930350 29 100.0 32 ............................. TCCTGGCAGGAATACAAACTTGTGATGCTGCG 2930289 29 96.6 32 .............T............... ACCGCAGGCGCAGCGGCAATATTCTGGTTCAA 2930228 29 96.6 32 .............T............... TCGTTTCTGGGAGCGGGTCTTTCCAGTATTGC 2930167 29 96.6 32 ...........C................. CAGGGGAAGAGGTTCCGGCCCAGCAGTTCTAT 2930106 29 100.0 32 ............................. CTGCTGGGTCGTGTTTGACTCAACGCTCCCCA 2930045 29 100.0 32 ............................. ATTTTAGAATTACGCATTGAGCCGATGATGTA 2929984 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], //