Array 1 1849449-1851126 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCKZ01000003.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL03396 2014LSAL03396_3, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1849449 29 100.0 32 ............................. AGCGCCGATCCGGTGGTGTCCAACACAACGAA 1849510 29 100.0 32 ............................. GCTTCTGATTGCATTAGCTCCAAATCAGTACC 1849571 29 100.0 32 ............................. GCGTCAGGCGTGGTGGCCGTGATTACGGACGA 1849632 29 100.0 32 ............................. GCGTGCGCCGGGATATTGCGCCGCGCCGAGAA 1849693 29 100.0 32 ............................. GGCTAACCCATGAACACTATTACCAAATTCAC 1849754 29 100.0 32 ............................. GTTGCCGCCCTTACTGCGCGAGGCGTTGGAAC 1849815 29 100.0 32 ............................. GAGGGGCCGTCTGCCGCATATCAAACGCTATC 1849876 29 100.0 32 ............................. CAACACGAAAGAAAAAATACTCAATATTATTG 1849937 29 100.0 32 ............................. AAAATCATCATGGCCAGCGCTGGCGCGCTCGC 1849998 29 100.0 32 ............................. AATGATTATATCGATCGACCAATCGATGAGCA 1850059 29 100.0 32 ............................. TCGGTGAGACAAATCATTCCAGATTGATCAAC 1850120 29 100.0 32 ............................. AATTTAAACAGTAATTTAAAATTGTTAGCGTC 1850181 29 100.0 33 ............................. GCAACGGCGGCGCGGCATTCTGCGGTGCAAATA 1850243 29 100.0 32 ............................. GATTCCAGCGCGCCAAAATCAGGAGATTCCGT 1850304 29 100.0 32 ............................. CCCCCGGCATTCGGCTATGCCTATTCATATGT 1850365 29 100.0 32 ............................. TGGTCACTACCGTCTATCTCTTCCGGATACAC 1850426 29 100.0 32 ............................. CTTGCAGCCGAATACGGTATAGAGTGGGACGG 1850487 29 100.0 33 ............................. GCCTGTCCTGCGTCAGCGTTACCAGCTTCATGC 1850549 29 100.0 32 ............................. AAATTCAATTACGACTCGCTGCCTGACGGGGT 1850610 29 100.0 32 ............................. ATTTTGAGCGGACGGGAGCTGGCCGAATGACC 1850671 29 100.0 33 ............................. CGGTTTTTACTTTTGCTGCATTCCGCCTCCCGG 1850733 29 100.0 32 ............................. TCCTGGCAGGAATACAAACTTGTGATGCTGCG 1850794 29 96.6 32 .............T............... ACCGCAGGCGCAGCGGCAATATTCTGGTTCAA 1850855 29 96.6 32 .............T............... TCGTTTCTGGGAGCGGGTCTTTCCAGTATTGC 1850916 29 96.6 32 ...........C................. CAGGGGAAGAGGTTCCGGCCCAGCAGTTCTAT 1850977 29 100.0 32 ............................. CTGCTGGGTCGTGTTTGACTCAACGCTCCCCA 1851038 29 100.0 32 ............................. ATTTTAGAATTACGCATTGAGCCGATGATGTA 1851099 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 28 29 99.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTCGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-6] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-63.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 1867385-1869366 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCKZ01000003.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL03396 2014LSAL03396_3, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1867385 29 100.0 32 ............................. TTGAGGTTTGCGTTGAGCCTGTTCAGCATCAC 1867446 29 96.6 32 ............................C GCTGACTCTGCGGCGGATCTTCTCAACCAGTC 1867507 29 100.0 32 ............................. CCTAGAAAAGTTTGTTTAGGCAATCAAGCCCC 1867568 29 100.0 32 ............................. GTGTTAATTAATGAGTTTATTCCGTTTTAACA 1867629 29 100.0 32 ............................. AAATTTGGTTGACAGTAAAAGAGTGTGTCGGT 1867690 29 100.0 32 ............................. TCGGCTCGAGCACTTGCGACAACAAACACACG 1867751 29 100.0 32 ............................. GCGTTGAACTTGATATTCTCTACACCGATGCA 1867812 29 96.6 32 ..C.......................... ATATGAGGCAGCTCGCTGGCGGCTGGGATGGT 1867873 29 100.0 32 ............................. CCGTTTTTTTCCCACAGTTTGCCACCGAGACG 1867934 29 100.0 32 ............................. TTAAGTCGCTCTTTGTACGCTACACCGGAGGC 1867995 29 100.0 32 ............................. AAATATCCAGAGCTGGGCTTGAGGCTGACGGT 1868056 29 100.0 32 ............................. TAATTGACATACATTCACCATATTAAGGAAGA 1868117 29 100.0 32 ............................. CCATGCGCGGCGGCGCTTGCCCAGCTCAGAAA 1868178 29 100.0 32 ............................. GTAGTCTTCATATGCAGCGACATCATTGCCGA 1868239 29 100.0 32 ............................. GTCATTTTCTTGTTAATGGCGCTTGCATTAAC 1868300 29 100.0 32 ............................. CTGTGTGGTCTGTGCATAACGGTGTAACAGAG 1868361 29 100.0 32 ............................. AAAAATAGTCCTGAACGATAGCCCGCGCGGTC 1868422 29 100.0 32 ............................. CAGGAGTGGCTGGAGACTGTCGTCAAGCCTGA 1868483 29 100.0 32 ............................. GACCTATCAGCCTAATTTCCGGGGCAAGAGCT 1868544 29 100.0 32 ............................. ATTACGGGATAATAGTTTTGGTAATGGGTTGC 1868605 29 100.0 32 ............................. CCGCCAATATAAAGAACACTTTTATTTAAATA 1868666 29 100.0 32 ............................. GCGTTTATTTTTGATTTGTTATTTGGACGTTA 1868727 29 100.0 32 ............................. TTCCGGTCCTGCCCACTATTCGACAAAATCAG 1868788 29 100.0 32 ............................. GCTGATATCCGCCTGATTGGTGATCTGCGTCG 1868849 29 100.0 32 ............................. AATCCACATCCTGTTTAGCTCCATATAGCCCC 1868910 29 100.0 32 ............................. CCGAATTTCTCCGCGAACGCCCACCAGTCGCG 1868971 29 100.0 32 ............................. AGTTCGCCAGCGGTGCCCGCGATCTGGAGCTG 1869032 29 100.0 32 ............................. TCGCTTATCTTGAAATCGTCATCGGTCAGACC 1869093 29 100.0 32 ............................. GATCATCACCCAGGCATTTTCTGGAATATGAA 1869154 29 100.0 32 ............................. AATCCCGATGATCATGAATATTTCTGGCGCCA 1869215 29 100.0 32 ............................. GCAGAAACAGAAACCGGATATGAGCCATCCAT 1869276 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 1869337 29 96.6 0 A............................ | A [1869363] ========== ====== ====== ====== ============================= ================================ ================== 33 29 99.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCCCCTCAGCCTGCGTCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTCAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [2-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-48.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.92,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 3 4543330-4543138 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCKZ01000003.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL03396 2014LSAL03396_3, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ====================================== ======================================= ================== 4543329 38 100.0 39 ...................................... ATTCATGACTGGGGTGAAGTCGTAACAAGGTAACCGTAG 4543252 38 100.0 39 ...................................... GCGTACTTTGCAGTGCTCACACAGATTGTCTGATGAAAA 4543175 38 100.0 0 ...................................... | ========== ====== ====== ====== ====================================== ======================================= ================== 3 38 100.0 40 GGGAACCTGCGGTTGGATCACCTCCTTACCTTAAAGAA # Left flank : AGTCCCGCAACGAGCGCAACCCTTATCCTTTGTTGCCAGCGGTTAGGCCGGGAACTCAAAGGAGACTGCCAGTGATAAACTGGAGGAAGGTGGGGATGACGTCAAGTCATCATGGCCCTTACGACCAGGGCTACACACGTGCTACAATGGCGCATACAAAGAGAAGCGACCTCGCGAGAGCAAGCGGACCTCATAAAGTGCGTCGTAGTCCGGATTGGAGTCTGCAACTCGACTCCATGAAGTCGGAATCGCTAGTAATCGTGGATCAGAATGCCACGGTGAATACGTTCCCGGGCCTTGTACACACCGCCCGTCACACCATGGGAGTGGGTTGCAAAAGAAGTAGGTAGCTTAACCTTCGGGAGGGCGCTTACCACTTTGTGATTCATGACTGGGGTGAAGTCGTAACAAGGTAACCGTAGGGGAACCTGCGGTTGGATCACCTCCTTACCTNCTTTGTGATTCATGACTGGGGTGAAGTCGTAACAAGGTAACCGTAG # Right flank : GCGTACTTTGCAGTGCTCACACAGATTGTCTGATGAAAAACGAGCAGTAAAACCTCTACAGGCTTGTAGCTNTTTGCTCTTTAAAAATCTGGATCAAGCTGAAAATTGAAACACAGAACAACGAAAGTTGTTCGTGAGTCTCTCAAATTTTCGCAACACGATGATGAATCGTAAGAAACATCTTCGGGTTGTGAGGTTAAGCGACTAAGCGTACACGGTGGATGCCCTGGCAGTCAGAGGCGATGAAGGGCGTGCTAATCTGCGATAAGCGCCGGTAAGGTGATATGAACCGTTATAACCGGCGATACCCGAATGGGGAAACCCAGTGTGACTCGTCACACTATCATTAACTGAATCCATAGGTTAATGAGGCGAACCGGGGGAACTGAAACATCTAAGTACCCCGAGGAAAAGAAATCAACCGAGATTCCCCCAGTAGCGGCGAGCGAACGGGGAGGAGCCCAGAGCCTGAATCAGCATGTGTGTTAGTGGAAGCGTCT # 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: R [9,10] Score: 0.37/0.37 # Reference repeat match prediction: NA # Secondary Structural analysis prediction: NA [-5.10,-5.00] Score: 0/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [56.7-51.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,0.37 Confidence: MEDIUM] # Array family : NA //