Array 1 1490793-1492470 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCKW01000001.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL03404 2014LSAL03404_1, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1490793 29 100.0 32 ............................. AGCGCCGATCCGGTGGTGTCCAACACAACGAA 1490854 29 100.0 32 ............................. GCTTCTGATTGCATTAGCTCCAAATCAGTACC 1490915 29 100.0 32 ............................. GCGTCAGGCGTGGTGGCCGTGATTACGGACGA 1490976 29 100.0 32 ............................. GCGTGCGCCGGGATATTGCGCCGCGCCGAGAA 1491037 29 100.0 32 ............................. GGCTAACCCATGAACACTATTACCAAATTCAC 1491098 29 100.0 32 ............................. GTTGCCGCCCTTACTGCGCGAGGCGTTGGAAC 1491159 29 100.0 32 ............................. GAGGGGCCGTCTGCCGCATATCAAACGCTATC 1491220 29 100.0 32 ............................. CAACACGAAAGAAAAAATACTCAATATTATTG 1491281 29 100.0 32 ............................. AAAATCATCATGGCCAGCGCTGGCGCGCTCGC 1491342 29 100.0 32 ............................. AATGATTATATCGATCGACCAATCGATGAGCA 1491403 29 100.0 32 ............................. TCGGTGAGACAAATCATTCCAGATTGATCAAC 1491464 29 100.0 32 ............................. AATTTAAACAGTAATTTAAAATTGTTAGCGTC 1491525 29 100.0 33 ............................. GCAACGGCGGCGCGGCATTCTGCGGTGCAAATA 1491587 29 100.0 32 ............................. GATTCCAGCGCGCCAAAATCAGGAGATTCCGT 1491648 29 100.0 32 ............................. CCCCCGGCATTCGGCTATGCCTATTCATATGT 1491709 29 100.0 32 ............................. TGGTCACTACCGTCTATCTCTTCCGGATACAC 1491770 29 100.0 32 ............................. CTTGCAGCCGAATACGGTATAGAGTGGGACGG 1491831 29 100.0 33 ............................. GCCTGTCCTGCGTCAGCGTTACCAGCTTCATGC 1491893 29 100.0 32 ............................. AAATTCAATTACGACTCGCTGCCTGACGGGGT 1491954 29 100.0 32 ............................. ATTTTGAGCGGACGGGAGCTGGCCGAATGACC 1492015 29 100.0 33 ............................. CGGTTTTTACTTTTGCTGCATTCCGCCTCCCGG 1492077 29 100.0 32 ............................. TCCTGGCAGGAATACAAACTTGTGATGCTGCG 1492138 29 96.6 32 .............T............... ACCGCAGGCGCAGCGGCAATATTCTGGTTCAA 1492199 29 96.6 32 .............T............... TCGTTTCTGGGAGCGGGTCTTTCCAGTATTGC 1492260 29 96.6 32 ...........C................. CAGGGGAAGAGGTTCCGGCCCAGCAGTTCTAT 1492321 29 100.0 32 ............................. CTGCTGGGTCGTGTTTGACTCAACGCTCCCCA 1492382 29 100.0 32 ............................. ATTTTAGAATTACGCATTGAGCCGATGATGTA 1492443 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 1508729-1510710 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCKW01000001.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL03404 2014LSAL03404_1, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1508729 29 100.0 32 ............................. TTGAGGTTTGCGTTGAGCCTGTTCAGCATCAC 1508790 29 96.6 32 ............................C GCTGACTCTGCGGCGGATCTTCTCAACCAGTC 1508851 29 100.0 32 ............................. CCTAGAAAAGTTTGTTTAGGCAATCAAGCCCC 1508912 29 100.0 32 ............................. GTGTTAATTAATGAGTTTATTCCGTTTTAACA 1508973 29 100.0 32 ............................. AAATTTGGTTGACAGTAAAAGAGTGTGTCGGT 1509034 29 100.0 32 ............................. TCGGCTCGAGCACTTGCGACAACAAACACACG 1509095 29 100.0 32 ............................. GCGTTGAACTTGATATTCTCTACACCGATGCA 1509156 29 96.6 32 ..C.......................... ATATGAGGCAGCTCGCTGGCGGCTGGGATGGT 1509217 29 100.0 32 ............................. CCGTTTTTTTCCCACAGTTTGCCACCGAGACG 1509278 29 100.0 32 ............................. TTAAGTCGCTCTTTGTACGCTACACCGGAGGC 1509339 29 100.0 32 ............................. AAATATCCAGAGCTGGGCTTGAGGCTGACGGT 1509400 29 100.0 32 ............................. TAATTGACATACATTCACCATATTAAGGAAGA 1509461 29 100.0 32 ............................. CCATGCGCGGCGGCGCTTGCCCAGCTCAGAAA 1509522 29 100.0 32 ............................. GTAGTCTTCATATGCAGCGACATCATTGCCGA 1509583 29 100.0 32 ............................. GTCATTTTCTTGTTAATGGCGCTTGCATTAAC 1509644 29 100.0 32 ............................. CTGTGTGGTCTGTGCATAACGGTGTAACAGAG 1509705 29 100.0 32 ............................. AAAAATAGTCCTGAACGATAGCCCGCGCGGTC 1509766 29 100.0 32 ............................. CAGGAGTGGCTGGAGACTGTCGTCAAGCCTGA 1509827 29 100.0 32 ............................. GACCTATCAGCCTAATTTCCGGGGCAAGAGCT 1509888 29 100.0 32 ............................. ATTACGGGATAATAGTTTTGGTAATGGGTTGC 1509949 29 100.0 32 ............................. CCGCCAATATAAAGAACACTTTTATTTAAATA 1510010 29 100.0 32 ............................. GCGTTTATTTTTGATTTGTTATTTGGACGTTA 1510071 29 100.0 32 ............................. TTCCGGTCCTGCCCACTATTCGACAAAATCAG 1510132 29 100.0 32 ............................. GCTGATATCCGCCTGATTGGTGATCTGCGTCG 1510193 29 100.0 32 ............................. AATCCACATCCTGTTTAGCTCCATATAGCCCC 1510254 29 100.0 32 ............................. CCGAATTTCTCCGCGAACGCCCACCAGTCGCG 1510315 29 100.0 32 ............................. AGTTCGCCAGCGGTGCCCGCGATCTGGAGCTG 1510376 29 100.0 32 ............................. TCGCTTATCTTGAAATCGTCATCGGTCAGACC 1510437 29 100.0 32 ............................. GATCATCACCCAGGCATTTTCTGGAATATGAA 1510498 29 100.0 32 ............................. AATCCCGATGATCATGAATATTTCTGGCGCCA 1510559 29 100.0 32 ............................. GCAGAAACAGAAACCGGATATGAGCCATCCAT 1510620 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 1510681 29 96.6 0 A............................ | A [1510707] ========== ====== ====== ====== ============================= ================================ ================== 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 4187712-4187520 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCKW01000001.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL03404 2014LSAL03404_1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ====================================== ======================================= ================== 4187711 38 100.0 39 ...................................... ATTCATGACTGGGGTGAAGTCGTAACAAGGTAACCGTAG 4187634 38 100.0 39 ...................................... GCGTACTTTGCAGTGCTCACACAGATTGTCTGATGAAAA 4187557 38 100.0 0 ...................................... | ========== ====== ====== ====== ====================================== ======================================= ================== 3 38 100.0 40 GGGAACCTGCGGTTGGATCACCTCCTTACCTTAAAGAA # Left flank : CACGGCAGAAGCAGAAAACGCGGCGGACTGGGTGTTAAACAGCCTTGCCGACCTGCCATCGGCGATAAAAAAGCAGCAAAAATAAGCGTTATGGATAAAAGATGAGCGGTTAAAACAAAAATGCATTTTTCCGCTTGTCTTCCTGAACCGACTCCCTATAATGCGCCTCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTCGGTTGAAGAGAAAAATCCTGAAATTCAGGGTTGACTCTGAAAGAGGAAAGCGTAATATACGCCACCTCGCGACGGTGAGCTGCAAGCCGCGTCGCATCTGCTCTTTAACAATTTATCAGACAATCTGTGTGGGCACTCGAAGATACGGATTCTTAACGTCCTCGGACGAAAAATGAATACCAAGTCTCAAGAGTGAACACGTAATTCATTACGAAGTTTAATTCATGAGCATCAAACTTTNCTTTGTGATTCATGACTGGGGTGAAGTCGTAACAAGGTAACCGTAG # Right flank : GCGTACTTTGCAGTGCTCACACAGATTGTCTGATGAAAAACGAGCAGTAAAACCTCTACAGGCTTGTAGCTTTTGCTCTTTAAAAATCTGGATCAAGCTGAAAATTGAAACACAGAACAACGAAAGTTGTTCGTGAGTCTCTCAAATTTTCGCAACACGATGATGAATCGTAAGAAACATCTTCGGGTTGTGAGGTTAAGCGACTAAGCGTACACGGTGGATGCCCTGGCAGTCAGAGGCGATGAAGGGCGTGCTAATCTGCGATAAGCGCCGGTAAGGTGATATGAACCGTTATAACCGGCGATACCCGAATGGGGAAACCCAGTGTGACTCGTCACACTATCATTAACTGAATCCATAGGTTAATGAGGCGAACCGGGGGAACTGAAACATCTAAGTACCCCGAGGAAAAGAAATCAACCGAGATTCCCCCAGTAGCGGCGAGCGAACGGGGAGGAGCCCAGAGCCTGAATCAGCATGTGTGTTAGTGGAAGCGTCTG # 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 [56.7-56.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,0.37 Confidence: MEDIUM] # Array family : NA //