Array 1 1855991-1857668 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCLC01000003.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL03388 2014LSAL03388_4, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1855991 29 100.0 32 ............................. AGCGCCGATCCGGTGGTGTCCAACACAACGAA 1856052 29 100.0 32 ............................. GCTTCTGATTGCATTAGCTCCAAATCAGTACC 1856113 29 100.0 32 ............................. GCGTCAGGCGTGGTGGCCGTGATTACGGACGA 1856174 29 100.0 32 ............................. GCGTGCGCCGGGATATTGCGCCGCGCCGAGAA 1856235 29 100.0 32 ............................. GGCTAACCCATGAACACTATTACCAAATTCAC 1856296 29 100.0 32 ............................. GTTGCCGCCCTTACTGCGCGAGGCGTTGGAAC 1856357 29 100.0 32 ............................. GAGGGGCCGTCTGCCGCATATCAAACGCTATC 1856418 29 100.0 32 ............................. CAACACGAAAGAAAAAATACTCAATATTATTG 1856479 29 100.0 32 ............................. AAAATCATCATGGCCAGCGCTGGCGCGCTCGC 1856540 29 100.0 32 ............................. AATGATTATATCGATCGACCAATCGATGAGCA 1856601 29 100.0 32 ............................. TCGGTGAGACAAATCATTCCAGATTGATCAAC 1856662 29 100.0 32 ............................. AATTTAAACAGTAATTTAAAATTGTTAGCGTC 1856723 29 100.0 33 ............................. GCAACGGCGGCGCGGCATTCTGCGGTGCAAATA 1856785 29 100.0 32 ............................. GATTCCAGCGCGCCAAAATCAGGAGATTCCGT 1856846 29 100.0 32 ............................. CCCCCGGCATTCGGCTATGCCTATTCATATGT 1856907 29 100.0 32 ............................. TGGTCACTACCGTCTATCTCTTCCGGATACAC 1856968 29 100.0 32 ............................. CTTGCAGCCGAATACGGTATAGAGTGGGACGG 1857029 29 100.0 33 ............................. GCCTGTCCTGCGTCAGCGTTACCAGCTTCATGC 1857091 29 100.0 32 ............................. AAATTCAATTACGACTCGCTGCCTGACGGGGT 1857152 29 100.0 32 ............................. ATTTTGAGCGGACGGGAGCTGGCCGAATGACC 1857213 29 100.0 33 ............................. CGGTTTTTACTTTTGCTGCATTCCGCCTCCCGG 1857275 29 100.0 32 ............................. TCCTGGCAGGAATACAAACTTGTGATGCTGCG 1857336 29 96.6 32 .............T............... ACCGCAGGCGCAGCGGCAATATTCTGGTTCAA 1857397 29 96.6 32 .............T............... TCGTTTCTGGGAGCGGGTCTTTCCAGTATTGC 1857458 29 96.6 32 ...........C................. CAGGGGAAGAGGTTCCGGCCCAGCAGTTCTAT 1857519 29 100.0 32 ............................. CTGCTGGGTCGTGTTTGACTCAACGCTCCCCA 1857580 29 100.0 32 ............................. ATTTTAGAATTACGCATTGAGCCGATGATGTA 1857641 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 1873927-1875908 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCLC01000003.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL03388 2014LSAL03388_4, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1873927 29 100.0 32 ............................. TTGAGGTTTGCGTTGAGCCTGTTCAGCATCAC 1873988 29 96.6 32 ............................C GCTGACTCTGCGGCGGATCTTCTCAACCAGTC 1874049 29 100.0 32 ............................. CCTAGAAAAGTTTGTTTAGGCAATCAAGCCCC 1874110 29 100.0 32 ............................. GTGTTAATTAATGAGTTTATTCCGTTTTAACA 1874171 29 100.0 32 ............................. AAATTTGGTTGACAGTAAAAGAGTGTGTCGGT 1874232 29 100.0 32 ............................. TCGGCTCGAGCACTTGCGACAACAAACACACG 1874293 29 100.0 32 ............................. GCGTTGAACTTGATATTCTCTACACCGATGCA 1874354 29 96.6 32 ..C.......................... ATATGAGGCAGCTCGCTGGCGGCTGGGATGGT 1874415 29 100.0 32 ............................. CCGTTTTTTTCCCACAGTTTGCCACCGAGACG 1874476 29 100.0 32 ............................. TTAAGTCGCTCTTTGTACGCTACACCGGAGGC 1874537 29 100.0 32 ............................. AAATATCCAGAGCTGGGCTTGAGGCTGACGGT 1874598 29 100.0 32 ............................. TAATTGACATACATTCACCATATTAAGGAAGA 1874659 29 100.0 32 ............................. CCATGCGCGGCGGCGCTTGCCCAGCTCAGAAA 1874720 29 100.0 32 ............................. GTAGTCTTCATATGCAGCGACATCATTGCCGA 1874781 29 100.0 32 ............................. GTCATTTTCTTGTTAATGGCGCTTGCATTAAC 1874842 29 100.0 32 ............................. CTGTGTGGTCTGTGCATAACGGTGTAACAGAG 1874903 29 100.0 32 ............................. AAAAATAGTCCTGAACGATAGCCCGCGCGGTC 1874964 29 100.0 32 ............................. CAGGAGTGGCTGGAGACTGTCGTCAAGCCTGA 1875025 29 100.0 32 ............................. GACCTATCAGCCTAATTTCCGGGGCAAGAGCT 1875086 29 100.0 32 ............................. ATTACGGGATAATAGTTTTGGTAATGGGTTGC 1875147 29 100.0 32 ............................. CCGCCAATATAAAGAACACTTTTATTTAAATA 1875208 29 100.0 32 ............................. GCGTTTATTTTTGATTTGTTATTTGGACGTTA 1875269 29 100.0 32 ............................. TTCCGGTCCTGCCCACTATTCGACAAAATCAG 1875330 29 100.0 32 ............................. GCTGATATCCGCCTGATTGGTGATCTGCGTCG 1875391 29 100.0 32 ............................. AATCCACATCCTGTTTAGCTCCATATAGCCCC 1875452 29 100.0 32 ............................. CCGAATTTCTCCGCGAACGCCCACCAGTCGCG 1875513 29 100.0 32 ............................. AGTTCGCCAGCGGTGCCCGCGATCTGGAGCTG 1875574 29 100.0 32 ............................. TCGCTTATCTTGAAATCGTCATCGGTCAGACC 1875635 29 100.0 32 ............................. GATCATCACCCAGGCATTTTCTGGAATATGAA 1875696 29 100.0 32 ............................. AATCCCGATGATCATGAATATTTCTGGCGCCA 1875757 29 100.0 32 ............................. GCAGAAACAGAAACCGGATATGAGCCATCCAT 1875818 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 1875879 29 96.6 0 A............................ | A [1875905] ========== ====== ====== ====== ============================= ================================ ================== 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], //