Array 1 1854063-1855740 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCKT01000001.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL03410 2014LSAL03410_1, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1854063 29 100.0 32 ............................. AGCGCCGATCCGGTGGTGTCCAACACAACGAA 1854124 29 100.0 32 ............................. GCTTCTGATTGCATTAGCTCCAAATCAGTACC 1854185 29 100.0 32 ............................. GCGTCAGGCGTGGTGGCCGTGATTACGGACGA 1854246 29 100.0 32 ............................. GCGTGCGCCGGGATATTGCGCCGCGCCGAGAA 1854307 29 100.0 32 ............................. GGCTAACCCATGAACACTATTACCAAATTCAC 1854368 29 100.0 32 ............................. GTTGCCGCCCTTACTGCGCGAGGCGTTGGAAC 1854429 29 100.0 32 ............................. GAGGGGCCGTCTGCCGCATATCAAACGCTATC 1854490 29 100.0 32 ............................. CAACACGAAAGAAAAAATACTCAATATTATTG 1854551 29 100.0 32 ............................. AAAATCATCATGGCCAGCGCTGGCGCGCTCGC 1854612 29 100.0 32 ............................. AATGATTATATCGATCGACCAATCGATGAGCA 1854673 29 100.0 32 ............................. TCGGTGAGACAAATCATTCCAGATTGATCAAC 1854734 29 100.0 32 ............................. AATTTAAACAGTAATTTAAAATTGTTAGCGTC 1854795 29 100.0 33 ............................. GCAACGGCGGCGCGGCATTCTGCGGTGCAAATA 1854857 29 100.0 32 ............................. GATTCCAGCGCGCCAAAATCAGGAGATTCCGT 1854918 29 100.0 32 ............................. CCCCCGGCATTCGGCTATGCCTATTCATATGT 1854979 29 100.0 32 ............................. TGGTCACTACCGTCTATCTCTTCCGGATACAC 1855040 29 100.0 32 ............................. CTTGCAGCCGAATACGGTATAGAGTGGGACGG 1855101 29 100.0 33 ............................. GCCTGTCCTGCGTCAGCGTTACCAGCTTCATGC 1855163 29 100.0 32 ............................. AAATTCAATTACGACTCGCTGCCTGACGGGGT 1855224 29 100.0 32 ............................. ATTTTGAGCGGACGGGAGCTGGCCGAATGACC 1855285 29 100.0 33 ............................. CGGTTTTTACTTTTGCTGCATTCCGCCTCCCGG 1855347 29 100.0 32 ............................. TCCTGGCAGGAATACAAACTTGTGATGCTGCG 1855408 29 96.6 32 .............T............... ACCGCAGGCGCAGCGGCAATATTCTGGTTCAA 1855469 29 96.6 32 .............T............... TCGTTTCTGGGAGCGGGTCTTTCCAGTATTGC 1855530 29 96.6 32 ...........C................. CAGGGGAAGAGGTTCCGGCCCAGCAGTTCTAT 1855591 29 100.0 32 ............................. CTGCTGGGTCGTGTTTGACTCAACGCTCCCCA 1855652 29 100.0 32 ............................. ATTTTAGAATTACGCATTGAGCCGATGATGTA 1855713 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 1871999-1873980 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCKT01000001.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL03410 2014LSAL03410_1, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1871999 29 100.0 32 ............................. TTGAGGTTTGCGTTGAGCCTGTTCAGCATCAC 1872060 29 96.6 32 ............................C GCTGACTCTGCGGCGGATCTTCTCAACCAGTC 1872121 29 100.0 32 ............................. CCTAGAAAAGTTTGTTTAGGCAATCAAGCCCC 1872182 29 100.0 32 ............................. GTGTTAATTAATGAGTTTATTCCGTTTTAACA 1872243 29 100.0 32 ............................. AAATTTGGTTGACAGTAAAAGAGTGTGTCGGT 1872304 29 100.0 32 ............................. TCGGCTCGAGCACTTGCGACAACAAACACACG 1872365 29 100.0 32 ............................. GCGTTGAACTTGATATTCTCTACACCGATGCA 1872426 29 96.6 32 ..C.......................... ATATGAGGCAGCTCGCTGGCGGCTGGGATGGT 1872487 29 100.0 32 ............................. CCGTTTTTTTCCCACAGTTTGCCACCGAGACG 1872548 29 100.0 32 ............................. TTAAGTCGCTCTTTGTACGCTACACCGGAGGC 1872609 29 100.0 32 ............................. AAATATCCAGAGCTGGGCTTGAGGCTGACGGT 1872670 29 100.0 32 ............................. TAATTGACATACATTCACCATATTAAGGAAGA 1872731 29 100.0 32 ............................. CCATGCGCGGCGGCGCTTGCCCAGCTCAGAAA 1872792 29 100.0 32 ............................. GTAGTCTTCATATGCAGCGACATCATTGCCGA 1872853 29 100.0 32 ............................. GTCATTTTCTTGTTAATGGCGCTTGCATTAAC 1872914 29 100.0 32 ............................. CTGTGTGGTCTGTGCATAACGGTGTAACAGAG 1872975 29 100.0 32 ............................. AAAAATAGTCCTGAACGATAGCCCGCGCGGTC 1873036 29 100.0 32 ............................. CAGGAGTGGCTGGAGACTGTCGTCAAGCCTGA 1873097 29 100.0 32 ............................. GACCTATCAGCCTAATTTCCGGGGCAAGAGCT 1873158 29 100.0 32 ............................. ATTACGGGATAATAGTTTTGGTAATGGGTTGC 1873219 29 100.0 32 ............................. CCGCCAATATAAAGAACACTTTTATTTAAATA 1873280 29 100.0 32 ............................. GCGTTTATTTTTGATTTGTTATTTGGACGTTA 1873341 29 100.0 32 ............................. TTCCGGTCCTGCCCACTATTCGACAAAATCAG 1873402 29 100.0 32 ............................. GCTGATATCCGCCTGATTGGTGATCTGCGTCG 1873463 29 100.0 32 ............................. AATCCACATCCTGTTTAGCTCCATATAGCCCC 1873524 29 100.0 32 ............................. CCGAATTTCTCCGCGAACGCCCACCAGTCGCG 1873585 29 100.0 32 ............................. AGTTCGCCAGCGGTGCCCGCGATCTGGAGCTG 1873646 29 100.0 32 ............................. TCGCTTATCTTGAAATCGTCATCGGTCAGACC 1873707 29 100.0 32 ............................. GATCATCACCCAGGCATTTTCTGGAATATGAA 1873768 29 100.0 32 ............................. AATCCCGATGATCATGAATATTTCTGGCGCCA 1873829 29 100.0 32 ............................. GCAGAAACAGAAACCGGATATGAGCCATCCAT 1873890 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 1873951 29 96.6 0 A............................ | A [1873977] ========== ====== ====== ====== ============================= ================================ ================== 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 4548371-4548179 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCKT01000001.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL03410 2014LSAL03410_1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ====================================== ======================================= ================== 4548370 38 100.0 39 ...................................... ATTCATGACTGGGGTGAAGTCGTAACAAGGTAACCGTAG 4548293 38 100.0 39 ...................................... GCGTACTTTGCAGTGCTCACACAGATTGTCTGATGAAAA 4548216 38 100.0 0 ...................................... | ========== ====== ====== ====== ====================================== ======================================= ================== 3 38 100.0 40 GGGAACCTGCGGTTGGATCACCTCCTTACCTTAAAGAA # Left flank : AGTCCCGCAACGAGCGCAACCCTTATCCTTTGTTGCCAGCGATTAGGTCGGGAACTCAAAGGAGACTGCCAGTGATAAACTGGAGGAAGGTGGGGATGACGTCAAGTCATCATGGCCCTTACGACCAGGGCTACACACGTGCTACAATGGCGCATACAAAGAGAAGCGACCTCGCGAGAGCAAGCGGACCTCATAAAGTGCGTCGTAGTCCGGATTGGAGTCTGCAACTCGACTCCATGAAGTCGGAATCGCTAGTAATCGTGGATCAGAATGCCACGGTGAATACGTTCCCGGGCCTTGTACACACCGCCCGTCACACCATGGGAGTGGGTTGCAAAAGAAGTAGGTAGCTTAACCTTCGGGAGGGCGCTTACCACTTTGTGATTCATGACTGGGGTGAAGTCGTAACAAGGTAACCGTAGGGGAACCTGCGGTTGGATCACCTCCTTACCTNCTTTGTGATTCATGACTGGGGTGAAGTCGTAACAAGGTAACCGTAG # Right flank : GCGTACTTTGCAGTGCTCACACAGATTGTCTGATGAAAAACGAGCAGTAAAACCTCTACAGGCTTGTAGCTTTTGCTCTTTAAAAATCTGGATCAAGCTGAAAATTGAAACACAGAACAACGAAAGTTGTTCGTGAGTCTCTCAAATTTTCGCAACACGATGATGAATCGTAAGAAACATCTTCGGGTTGTGAGGTTAAGCGACTAAGCGTACACGGTGGATGCCCTGGCAGTCAGAGGCGATGAAGGGCGTGCTAATCTGCGATAAGCGCCGGTAAGGTGATATGAACCGTTATAACCGGCGATACCCGAATGGGGAAACCCAGTGTGATTCGTCACACTATCATTAACTGAATCCATAGGTTAATGAGGCGAACCGGGGGAACTGAAACATCTAAGTACCCCGAGGAAAAGAAATCAACCGAGATTCCCCCAGTAGCGGCGAGCGAACGGGGAGGAGCCCAGAGCCTGAATCAGCATGTGTGTTAGTGGAAGCGTCTG # 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 //