Array 1 2914342-2912421 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCLJ01000001.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL03342 2014LSAL03342_1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 2914341 29 100.0 32 ............................. TTGAGGTTTGCGTTGAGCCTGTTCAGCATCAC 2914280 29 96.6 32 ............................C GCTGACTCTGCGGCGGATCTTCTCAACCAGTC 2914219 29 100.0 32 ............................. CCTAGAAAAGTTTGTTTAGGCAATCAAGCCCC 2914158 29 100.0 32 ............................. GTGTTAATTAATGAGTTTATTCCGTTTTAACA 2914097 29 100.0 32 ............................. AAATTTGGTTGACAGTAAAAGAGTGTGTCGGT 2914036 29 100.0 32 ............................. TCGGCTCGAGCACTTGCGACAACAAACACACG 2913975 29 100.0 32 ............................. GCGTTGAACTTGATATTCTCTACACCGATGCA 2913914 29 96.6 32 ..C.......................... ATATGAGGCAGCTCGCTGGCGGCTGGGATGGT 2913853 29 100.0 32 ............................. CCGTTTTTTTCCCACAGTTTGCCACCGAGACG 2913792 29 100.0 32 ............................. TTAAGTCGCTCTTTGTACGCTACACCGGAGGC 2913731 29 100.0 32 ............................. AAATATCCAGAGCTGGGCTTGAGGCTGACGGT 2913670 29 100.0 32 ............................. TAATTGACATACATTCACCATATTAAGGAAGA 2913609 29 100.0 32 ............................. CCATGCGCGGCGGCGCTTGCCCAGCTCAGAAA 2913548 29 100.0 32 ............................. GTAGTCTTCATATGCAGCGACATCATTGCCGA 2913487 29 100.0 32 ............................. GTCATTTTCTTGTTAATGGCGCTTGCATTAAC 2913426 29 100.0 32 ............................. CTGTGTGGTCTGTGCATAACGGTGTAACAGAG 2913365 29 100.0 32 ............................. AAAAATAGTCCTGAACGATAGCCCGCGCGGTC 2913304 29 100.0 32 ............................. CAGGAGTGGCTGGAGACTGTCGTCAAGCCTGA 2913243 29 100.0 32 ............................. ATTACGGGATAATAGTTTTGGTAATGGGTTGC 2913182 29 100.0 32 ............................. CCGCCAATATAAAGAACACTTTTATTTAAATA 2913121 29 100.0 32 ............................. GCGTTTATTTTTGATTTGTTATTTGGACGTTA 2913060 29 100.0 32 ............................. TTCCGGTCCTGCCCACTATTCGACAAAATCAG 2912999 29 100.0 32 ............................. GCTGATATCCGCCTGATTGGTGATCTGCGTCG 2912938 29 100.0 32 ............................. AATCCACATCCTGTTTAGCTCCATATAGCCCC 2912877 29 100.0 32 ............................. CCGAATTTCTCCGCGAACGCCCACCAGTCGCG 2912816 29 100.0 32 ............................. AGTTCGCCAGCGGTGCCCGCGATCTGGAGCTG 2912755 29 100.0 32 ............................. TCGCTTATCTTGAAATCGTCATCGGTCAGACC 2912694 29 100.0 32 ............................. GATCATCACCCAGGCATTTTCTGGAATATGAA 2912633 29 100.0 32 ............................. AATCCCGATGATCATGAATATTTCTGGCGCCA 2912572 29 100.0 32 ............................. GCAGAAACAGAAACCGGATATGAGCCATCCAT 2912511 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 2912450 29 96.6 0 A............................ | A [2912423] ========== ====== ====== ====== ============================= ================================ ================== 32 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 2932278-2930600 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCLJ01000001.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL03342 2014LSAL03342_1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 2932277 29 100.0 32 ............................. AGCGCCGATCCGGTGGTGTCCAACACAACGAA 2932216 29 100.0 32 ............................. GCTTCTGATTGCATTAGCTCCAAATCAGTACC 2932155 29 100.0 32 ............................. GCGTCAGGCGTGGTGGCCGTGATTACGGACGA 2932094 29 100.0 32 ............................. GCGTGCGCCGGGATATTGCGCCGCGCCGAGAA 2932033 29 100.0 32 ............................. GGCTAACCCATGAACACTATTACCAAATTCAC 2931972 29 100.0 32 ............................. GTTGCCGCCCTTACTGCGCGAGGCGTTGGAAC 2931911 29 100.0 32 ............................. GAGGGGCCGTCTGCCGCATATCAAACGCTATC 2931850 29 100.0 32 ............................. CAACACGAAAGAAAAAATACTCAATATTATTG 2931789 29 100.0 32 ............................. AAAATCATCATGGCCAGCGCTGGCGCGCTCGC 2931728 29 100.0 32 ............................. AATGATTATATCGATCGACCAATCGATGAGCA 2931667 29 100.0 32 ............................. TCGGTGAGACAAATCATTCCAGATTGATCAAC 2931606 29 100.0 32 ............................. AATTTAAACAGTAATTTAAAATTGTTAGCGTC 2931545 29 100.0 33 ............................. GCAACGGCGGCGCGGCATTCTGCGGTGCAAATA 2931483 29 100.0 32 ............................. GATTCCAGCGCGCCAAAATCAGGAGATTCCGT 2931422 29 100.0 32 ............................. CCCCCGGCATTCGGCTATGCCTATTCATATGT 2931361 29 100.0 32 ............................. TGGTCACTACCGTCTATCTCTTCCGGATACAC 2931300 29 100.0 32 ............................. CTTGCAGCCGAATACGGTATAGAGTGGGACGG 2931239 29 100.0 33 ............................. GCCTGTCCTGCGTCAGCGTTACCAGCTTCATGC 2931177 29 100.0 32 ............................. AAATTCAATTACGACTCGCTGCCTGACGGGGT 2931116 29 100.0 32 ............................. ATTTTGAGCGGACGGGAGCTGGCCGAATGACC 2931055 29 100.0 33 ............................. CGGTTTTTACTTTTGCTGCATTCCGCCTCCCGG 2930993 29 100.0 32 ............................. TCCTGGCAGGAATACAAACTTGTGATGCTGCG 2930932 29 96.6 32 .............T............... ACCGCAGGCGCAGCGGCAATATTCTGGTTCAA 2930871 29 96.6 32 .............T............... TCGTTTCTGGGAGCGGGTCTTTCCAGTATTGC 2930810 29 96.6 32 ...........C................. CAGGGGAAGAGGTTCCGGCCCAGCAGTTCTAT 2930749 29 100.0 32 ............................. CTGCTGGGTCGTGTTTGACTCAACGCTCCCCA 2930688 29 100.0 32 ............................. ATTTTAGAATTACGCATTGAGCCGATGATGTA 2930627 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], //