Array 1 1488942-1490619 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCKN01000001.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL03470 2014LSAL03470_1, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1488942 29 100.0 32 ............................. AGCGCCGATCCGGTGGTGTCCAACACAACGAA 1489003 29 100.0 32 ............................. GCTTCTGATTGCATTAGCTCCAAATCAGTACC 1489064 29 100.0 32 ............................. GCGTCAGGCGTGGTGGCCGTGATTACGGACGA 1489125 29 100.0 32 ............................. GCGTGCGCCGGGATATTGCGCCGCGCCGAGAA 1489186 29 100.0 32 ............................. GGCTAACCCATGAACACTATTACCAAATTCAC 1489247 29 100.0 32 ............................. GTTGCCGCCCTTACTGCGCGAGGCGTTGGAAC 1489308 29 100.0 32 ............................. GAGGGGCCGTCTGCCGCATATCAAACGCTATC 1489369 29 100.0 32 ............................. CAACACGAAAGAAAAAATACTCAATATTATTG 1489430 29 100.0 32 ............................. AAAATCATCATGGCCAGCGCTGGCGCGCTCGC 1489491 29 100.0 32 ............................. AATGATTATATCGATCGACCAATCGATGAGCA 1489552 29 100.0 32 ............................. TCGGTGAGACAAATCATTCCAGATTGATCAAC 1489613 29 100.0 32 ............................. AATTTAAACAGTAATTTAAAATTGTTAGCGTC 1489674 29 100.0 33 ............................. GCAACGGCGGCGCGGCATTCTGCGGTGCAAATA 1489736 29 100.0 32 ............................. GATTCCAGCGCGCCAAAATCAGGAGATTCCGT 1489797 29 100.0 32 ............................. CCCCCGGCATTCGGCTATGCCTATTCATATGT 1489858 29 100.0 32 ............................. TGGTCACTACCGTCTATCTCTTCCGGATACAC 1489919 29 100.0 32 ............................. CTTGCAGCCGAATACGGTATAGAGTGGGACGG 1489980 29 100.0 33 ............................. GCCTGTCCTGCGTCAGCGTTACCAGCTTCATGC 1490042 29 100.0 32 ............................. AAATTCAATTACGACTCGCTGCCTGACGGGGT 1490103 29 100.0 32 ............................. ATTTTGAGCGGACGGGAGCTGGCCGAATGACC 1490164 29 100.0 33 ............................. CGGTTTTTACTTTTGCTGCATTCCGCCTCCCGG 1490226 29 100.0 32 ............................. TCCTGGCAGGAATACAAACTTGTGATGCTGCG 1490287 29 96.6 32 .............T............... ACCGCAGGCGCAGCGGCAATATTCTGGTTCAA 1490348 29 96.6 32 .............T............... TCGTTTCTGGGAGCGGGTCTTTCCAGTATTGC 1490409 29 96.6 32 ...........C................. CAGGGGAAGAGGTTCCGGCCCAGCAGTTCTAT 1490470 29 100.0 32 ............................. CTGCTGGGTCGTGTTTGACTCAACGCTCCCCA 1490531 29 100.0 32 ............................. ATTTTAGAATTACGCATTGAGCCGATGATGTA 1490592 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 1506878-1508798 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCKN01000001.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL03470 2014LSAL03470_1, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1506878 29 100.0 32 ............................. TTGAGGTTTGCGTTGAGCCTGTTCAGCATCAC 1506939 29 96.6 32 ............................C GCTGACTCTGCGGCGGATCTTCTCAACCAGTC 1507000 29 100.0 32 ............................. CCTAGAAAAGTTTGTTTAGGCAATCAAGCCCC 1507061 29 100.0 32 ............................. GTGTTAATTAATGAGTTTATTCCGTTTTAACA 1507122 29 100.0 32 ............................. AAATTTGGTTGACAGTAAAAGAGTGTGTCGGT 1507183 29 100.0 32 ............................. TCGGCTCGAGCACTTGCGACAACAAACACACG 1507244 29 100.0 32 ............................. GCGTTGAACTTGATATTCTCTACACCGATGCA 1507305 29 96.6 32 ..C.......................... ATATGAGGCAGCTCGCTGGCGGCTGGGATGGT 1507366 29 100.0 32 ............................. CCGTTTTTTTCCCACAGTTTGCCACCGAGACG 1507427 29 100.0 32 ............................. TTAAGTCGCTCTTTGTACGCTACACCGGAGGC 1507488 29 100.0 32 ............................. AAATATCCAGAGCTGGGCTTGAGGCTGACGGT 1507549 29 100.0 32 ............................. TAATTGACATACATTCACCATATTAAGGAAGA 1507610 29 100.0 32 ............................. CCATGCGCGGCGGCGCTTGCCCAGCTCAGAAA 1507671 29 100.0 32 ............................. GTAGTCTTCATATGCAGCGACATCATTGCCGA 1507732 29 100.0 32 ............................. GTCATTTTCTTGTTAATGGCGCTTGCATTAAC 1507793 29 100.0 32 ............................. CTGTGTGGTCTGTGCATAACGGTGTAACAGAG 1507854 29 100.0 32 ............................. AAAAATAGTCCTGAACGATAGCCCGCGCGGTC 1507915 29 100.0 32 ............................. CAGGAGTGGCTGGAGACTGTCGTCAAGCCTGA 1507976 29 100.0 32 ............................. ATTACGGGATAATAGTTTTGGTAATGGGTTGC 1508037 29 100.0 32 ............................. CCGCCAATATAAAGAACACTTTTATTTAAATA 1508098 29 100.0 32 ............................. GCGTTTATTTTTGATTTGTTATTTGGACGTTA 1508159 29 100.0 32 ............................. TTCCGGTCCTGCCCACTATTCGACAAAATCAG 1508220 29 100.0 32 ............................. GCTGATATCCGCCTGATTGGTGATCTGCGTCG 1508281 29 100.0 32 ............................. AATCCACATCCTGTTTAGCTCCATATAGCCCC 1508342 29 100.0 32 ............................. CCGAATTTCTCCGCGAACGCCCACCAGTCGCG 1508403 29 100.0 32 ............................. AGTTCGCCAGCGGTGCCCGCGATCTGGAGCTG 1508464 29 100.0 32 ............................. TCGCTTATCTTGAAATCGTCATCGGTCAGACC 1508525 29 100.0 32 ............................. GATCATCACCCAGGCATTTTCTGGAATATGAA 1508586 29 100.0 32 ............................. AATCCCGATGATCATGAATATTTCTGGCGCCA 1508647 29 100.0 32 ............................. GCAGAAACAGAAACCGGATATGAGCCATCCAT 1508708 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 1508769 29 96.6 0 A............................ | A [1508795] ========== ====== ====== ====== ============================= ================================ ================== 32 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], //