Array 1 3022796-3020814 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCKQ01000001.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL03420 2014LSAL03420_1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 3022795 29 100.0 32 ............................. TTGAGGTTTGCGTTGAGCCTGTTCAGCATCAC 3022734 29 96.6 32 ............................C GCTGACTCTGCGGCGGATCTTCTCAACCAGTC 3022673 29 100.0 32 ............................. CCTAGAAAAGTTTGTTTAGGCAATCAAGCCCC 3022612 29 100.0 32 ............................. GTGTTAATTAATGAGTTTATTCCGTTTTAACA 3022551 29 100.0 32 ............................. AAATTTGGTTGACAGTAAAAGAGTGTGTCGGT 3022490 29 100.0 32 ............................. TCGGCTCGAGCACTTGCGACAACAAACACACG 3022429 29 100.0 32 ............................. GCGTTGAACTTGATATTCTCTACACCGATGCA 3022368 29 96.6 32 ..C.......................... ATATGAGGCAGCTCGCTGGCGGCTGGGATGGT 3022307 29 100.0 32 ............................. CCGTTTTTTTCCCACAGTTTGCCACCGAGACG 3022246 29 100.0 32 ............................. TTAAGTCGCTCTTTGTACGCTACACCGGAGGC 3022185 29 100.0 32 ............................. AAATATCCAGAGCTGGGCTTGAGGCTGACGGT 3022124 29 100.0 32 ............................. TAATTGACATACATTCACCATATTAAGGAAGA 3022063 29 100.0 32 ............................. CCATGCGCGGCGGCGCTTGCCCAGCTCAGAAA 3022002 29 100.0 32 ............................. GTAGTCTTCATATGCAGCGACATCATTGCCGA 3021941 29 100.0 32 ............................. GTCATTTTCTTGTTAATGGCGCTTGCATTAAC 3021880 29 100.0 32 ............................. CTGTGTGGTCTGTGCATAACGGTGTAACAGAG 3021819 29 100.0 32 ............................. AAAAATAGTCCTGAACGATAGCCCGCGCGGTC 3021758 29 100.0 32 ............................. CAGGAGTGGCTGGAGACTGTCGTCAAGCCTGA 3021697 29 100.0 32 ............................. GACCTATCAGCCTAATTTCCGGGGCAAGAGCT 3021636 29 100.0 32 ............................. ATTACGGGATAATAGTTTTGGTAATGGGTTGC 3021575 29 100.0 32 ............................. CCGCCAATATAAAGAACACTTTTATTTAAATA 3021514 29 100.0 32 ............................. GCGTTTATTTTTGATTTGTTATTTGGACGTTA 3021453 29 100.0 32 ............................. TTCCGGTCCTGCCCACTATTCGACAAAATCAG 3021392 29 100.0 32 ............................. GCTGATATCCGCCTGATTGGTGATCTGCGTCG 3021331 29 100.0 32 ............................. AATCCACATCCTGTTTAGCTCCATATAGCCCC 3021270 29 100.0 32 ............................. CCGAATTTCTCCGCGAACGCCCACCAGTCGCG 3021209 29 100.0 32 ............................. AGTTCGCCAGCGGTGCCCGCGATCTGGAGCTG 3021148 29 100.0 32 ............................. TCGCTTATCTTGAAATCGTCATCGGTCAGACC 3021087 29 100.0 32 ............................. GATCATCACCCAGGCATTTTCTGGAATATGAA 3021026 29 100.0 32 ............................. AATCCCGATGATCATGAATATTTCTGGCGCCA 3020965 29 100.0 32 ............................. GCAGAAACAGAAACCGGATATGAGCCATCCAT 3020904 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 3020843 29 96.6 0 A............................ | A [3020816] ========== ====== ====== ====== ============================= ================================ ================== 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 3040732-3039054 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCKQ01000001.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL03420 2014LSAL03420_1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3040731 29 100.0 32 ............................. AGCGCCGATCCGGTGGTGTCCAACACAACGAA 3040670 29 100.0 32 ............................. GCTTCTGATTGCATTAGCTCCAAATCAGTACC 3040609 29 100.0 32 ............................. GCGTCAGGCGTGGTGGCCGTGATTACGGACGA 3040548 29 100.0 32 ............................. GCGTGCGCCGGGATATTGCGCCGCGCCGAGAA 3040487 29 100.0 32 ............................. GGCTAACCCATGAACACTATTACCAAATTCAC 3040426 29 100.0 32 ............................. GTTGCCGCCCTTACTGCGCGAGGCGTTGGAAC 3040365 29 100.0 32 ............................. GAGGGGCCGTCTGCCGCATATCAAACGCTATC 3040304 29 100.0 32 ............................. CAACACGAAAGAAAAAATACTCAATATTATTG 3040243 29 100.0 32 ............................. AAAATCATCATGGCCAGCGCTGGCGCGCTCGC 3040182 29 100.0 32 ............................. AATGATTATATCGATCGACCAATCGATGAGCA 3040121 29 100.0 32 ............................. TCGGTGAGACAAATCATTCCAGATTGATCAAC 3040060 29 100.0 32 ............................. AATTTAAACAGTAATTTAAAATTGTTAGCGTC 3039999 29 100.0 33 ............................. GCAACGGCGGCGCGGCATTCTGCGGTGCAAATA 3039937 29 100.0 32 ............................. GATTCCAGCGCGCCAAAATCAGGAGATTCCGT 3039876 29 100.0 32 ............................. CCCCCGGCATTCGGCTATGCCTATTCATATGT 3039815 29 100.0 32 ............................. TGGTCACTACCGTCTATCTCTTCCGGATACAC 3039754 29 100.0 32 ............................. CTTGCAGCCGAATACGGTATAGAGTGGGACGG 3039693 29 100.0 33 ............................. GCCTGTCCTGCGTCAGCGTTACCAGCTTCATGC 3039631 29 100.0 32 ............................. AAATTCAATTACGACTCGCTGCCTGACGGGGT 3039570 29 100.0 32 ............................. ATTTTGAGCGGACGGGAGCTGGCCGAATGACC 3039509 29 100.0 33 ............................. CGGTTTTTACTTTTGCTGCATTCCGCCTCCCGG 3039447 29 100.0 32 ............................. TCCTGGCAGGAATACAAACTTGTGATGCTGCG 3039386 29 96.6 32 .............T............... ACCGCAGGCGCAGCGGCAATATTCTGGTTCAA 3039325 29 96.6 32 .............T............... TCGTTTCTGGGAGCGGGTCTTTCCAGTATTGC 3039264 29 96.6 32 ...........C................. CAGGGGAAGAGGTTCCGGCCCAGCAGTTCTAT 3039203 29 100.0 32 ............................. CTGCTGGGTCGTGTTTGACTCAACGCTCCCCA 3039142 29 100.0 32 ............................. ATTTTAGAATTACGCATTGAGCCGATGATGTA 3039081 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], //