Array 1 1847630-1849307 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCKU01000003.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL03409 2014LSAL03409_3, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1847630 29 100.0 32 ............................. AGCGCCGATCCGGTGGTGTCCAACACAACGAA 1847691 29 100.0 32 ............................. GCTTCTGATTGCATTAGCTCCAAATCAGTACC 1847752 29 100.0 32 ............................. GCGTCAGGCGTGGTGGCCGTGATTACGGACGA 1847813 29 100.0 32 ............................. GCGTGCGCCGGGATATTGCGCCGCGCCGAGAA 1847874 29 100.0 32 ............................. GGCTAACCCATGAACACTATTACCAAATTCAC 1847935 29 100.0 32 ............................. GTTGCCGCCCTTACTGCGCGAGGCGTTGGAAC 1847996 29 100.0 32 ............................. GAGGGGCCGTCTGCCGCATATCAAACGCTATC 1848057 29 100.0 32 ............................. CAACACGAAAGAAAAAATACTCAATATTATTG 1848118 29 100.0 32 ............................. AAAATCATCATGGCCAGCGCTGGCGCGCTCGC 1848179 29 100.0 32 ............................. AATGATTATATCGATCGACCAATCGATGAGCA 1848240 29 100.0 32 ............................. TCGGTGAGACAAATCATTCCAGATTGATCAAC 1848301 29 100.0 32 ............................. AATTTAAACAGTAATTTAAAATTGTTAGCGTC 1848362 29 100.0 33 ............................. GCAACGGCGGCGCGGCATTCTGCGGTGCAAATA 1848424 29 100.0 32 ............................. GATTCCAGCGCGCCAAAATCAGGAGATTCCGT 1848485 29 100.0 32 ............................. CCCCCGGCATTCGGCTATGCCTATTCATATGT 1848546 29 100.0 32 ............................. TGGTCACTACCGTCTATCTCTTCCGGATACAC 1848607 29 100.0 32 ............................. CTTGCAGCCGAATACGGTATAGAGTGGGACGG 1848668 29 100.0 33 ............................. GCCTGTCCTGCGTCAGCGTTACCAGCTTCATGC 1848730 29 100.0 32 ............................. AAATTCAATTACGACTCGCTGCCTGACGGGGT 1848791 29 100.0 32 ............................. ATTTTGAGCGGACGGGAGCTGGCCGAATGACC 1848852 29 100.0 33 ............................. CGGTTTTTACTTTTGCTGCATTCCGCCTCCCGG 1848914 29 100.0 32 ............................. TCCTGGCAGGAATACAAACTTGTGATGCTGCG 1848975 29 96.6 32 .............T............... ACCGCAGGCGCAGCGGCAATATTCTGGTTCAA 1849036 29 96.6 32 .............T............... TCGTTTCTGGGAGCGGGTCTTTCCAGTATTGC 1849097 29 96.6 32 ...........C................. CAGGGGAAGAGGTTCCGGCCCAGCAGTTCTAT 1849158 29 100.0 32 ............................. CTGCTGGGTCGTGTTTGACTCAACGCTCCCCA 1849219 29 100.0 32 ............................. ATTTTAGAATTACGCATTGAGCCGATGATGTA 1849280 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 1865566-1867547 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCKU01000003.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL03409 2014LSAL03409_3, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1865566 29 100.0 32 ............................. TTGAGGTTTGCGTTGAGCCTGTTCAGCATCAC 1865627 29 96.6 32 ............................C GCTGACTCTGCGGCGGATCTTCTCAACCAGTC 1865688 29 100.0 32 ............................. CCTAGAAAAGTTTGTTTAGGCAATCAAGCCCC 1865749 29 100.0 32 ............................. GTGTTAATTAATGAGTTTATTCCGTTTTAACA 1865810 29 100.0 32 ............................. AAATTTGGTTGACAGTAAAAGAGTGTGTCGGT 1865871 29 100.0 32 ............................. TCGGCTCGAGCACTTGCGACAACAAACACACG 1865932 29 100.0 32 ............................. GCGTTGAACTTGATATTCTCTACACCGATGCA 1865993 29 96.6 32 ..C.......................... ATATGAGGCAGCTCGCTGGCGGCTGGGATGGT 1866054 29 100.0 32 ............................. CCGTTTTTTTCCCACAGTTTGCCACCGAGACG 1866115 29 100.0 32 ............................. TTAAGTCGCTCTTTGTACGCTACACCGGAGGC 1866176 29 100.0 32 ............................. AAATATCCAGAGCTGGGCTTGAGGCTGACGGT 1866237 29 100.0 32 ............................. TAATTGACATACATTCACCATATTAAGGAAGA 1866298 29 100.0 32 ............................. CCATGCGCGGCGGCGCTTGCCCAGCTCAGAAA 1866359 29 100.0 32 ............................. GTAGTCTTCATATGCAGCGACATCATTGCCGA 1866420 29 100.0 32 ............................. GTCATTTTCTTGTTAATGGCGCTTGCATTAAC 1866481 29 100.0 32 ............................. CTGTGTGGTCTGTGCATAACGGTGTAACAGAG 1866542 29 100.0 32 ............................. AAAAATAGTCCTGAACGATAGCCCGCGCGGTC 1866603 29 100.0 32 ............................. CAGGAGTGGCTGGAGACTGTCGTCAAGCCTGA 1866664 29 100.0 32 ............................. GACCTATCAGCCTAATTTCCGGGGCAAGAGCT 1866725 29 100.0 32 ............................. ATTACGGGATAATAGTTTTGGTAATGGGTTGC 1866786 29 100.0 32 ............................. CCGCCAATATAAAGAACACTTTTATTTAAATA 1866847 29 100.0 32 ............................. GCGTTTATTTTTGATTTGTTATTTGGACGTTA 1866908 29 100.0 32 ............................. TTCCGGTCCTGCCCACTATTCGACAAAATCAG 1866969 29 100.0 32 ............................. GCTGATATCCGCCTGATTGGTGATCTGCGTCG 1867030 29 100.0 32 ............................. AATCCACATCCTGTTTAGCTCCATATAGCCCC 1867091 29 100.0 32 ............................. CCGAATTTCTCCGCGAACGCCCACCAGTCGCG 1867152 29 100.0 32 ............................. AGTTCGCCAGCGGTGCCCGCGATCTGGAGCTG 1867213 29 100.0 32 ............................. TCGCTTATCTTGAAATCGTCATCGGTCAGACC 1867274 29 100.0 32 ............................. GATCATCACCCAGGCATTTTCTGGAATATGAA 1867335 29 100.0 32 ............................. AATCCCGATGATCATGAATATTTCTGGCGCCA 1867396 29 100.0 32 ............................. GCAGAAACAGAAACCGGATATGAGCCATCCAT 1867457 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 1867518 29 96.6 0 A............................ | A [1867544] ========== ====== ====== ====== ============================= ================================ ================== 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 4542717-4542524 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCKU01000003.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL03409 2014LSAL03409_3, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ====================================== ======================================== ================== 4542716 38 100.0 39 ...................................... ATTCATGACTGGGGTGAAGTCGTAACAAGGTAACCGTAG 4542639 38 100.0 40 ...................................... GCGTACTTTGCAGTGCTCACACAGATTGTCTGATGAAAAN 4542561 38 100.0 0 ...................................... | ========== ====== ====== ====== ====================================== ======================================== ================== 3 38 100.0 40 GGGAACCTGCGGTTGGATCACCTCCTTACCTTAAAGAA # Left flank : AGTCCCGCAACGAGCGCAACCCTTATCCTTTGTTGCCAGCGATTAGGTCGGGAACTCAAAGGAGACTGCCAGTGATAAACTGGAGGAAGGTGGGGATGACGTCAAGTCATCATGGCCCTTACGACCAGGGCTACACACGTGCTACAATGGCGCATACAAAGAGAAGCGACCTCGCGAGAGCAAGCGGACCTCATAAAGTGCGTCGTAGTCCGGATTGGAGTCTGCAACTCGACTCCATGAAGTCGGAATCGCTAGTAATCGTGGATCAGAATGCCACGGTGAATACGTTCCCGGGCCTTGTACACACCGCCCGTCACACCATGGGAGTGGGTTGCAAAAGAAGTAGGTAGCTTAACCTTCGGGAGGGCGCTTACCACTTTGTGATTCATGACTGGGGTGAAGTCGTAACAAGGTAACCGTAGGGGAACCTGCGGTTGGATCACCTCCTTACCTNCTTTGTGATTCATGACTGGGGTGAAGTCGTAACAAGGTAACCGTAG # 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 //