Array 1 1651064-1651945 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCML01000002.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL01158 2014LSAL01158_2, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1651064 29 100.0 32 ............................. GGGCTAACGCCATTAAAAGAACTGGTTCCGTA 1651125 29 100.0 32 ............................. CGGTGCTAAAGTTCGGAGAAGATCCCCACGCC 1651186 29 100.0 32 ............................. TAGCCGGGTTCGAGTCGATGAAGCAATCCGTC 1651247 29 96.6 32 ............................A CGCGTCCGACTGAAATCACGCCTCTGTATCCC 1651308 29 100.0 32 ............................. ATAAAATTAAAAATGTGACCCATGTCAATAAA 1651369 29 100.0 32 ............................. TTGTCTTTTTTCATGTTGATGACGTCGCCCTC 1651430 29 100.0 32 ............................. GCTGTCGGTCGCAGTGTGGATATTGCGATCAA 1651491 29 100.0 32 ............................. GCGCAATTGCAGTTTGACGCGGTGCTGTCATT 1651552 29 100.0 32 ............................. TGTCTTAACTCCATTGCTGAGTCGATTGTGAA 1651613 29 100.0 32 ............................. CACACAGAACGCCAGTTATAATCATCGGTGCT 1651674 29 100.0 32 ............................. TCGTTTGTGGCGTCAGTAATACTATTATCGGT 1651735 29 96.6 32 .............T............... TTTTTAAATCCGGACAGACCCTGTAACGGATC 1651796 29 100.0 32 ............................. ATCCGACTGTATGCCCAGCAGAACGAGGGCGC 1651857 29 96.6 32 .............T............... CACGAGTGGCAAATTGATTTCGACGAAAAACC 1651918 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 15 29 98.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCGATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGGAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 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 [1-7] 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 1668627-1671462 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCML01000002.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL01158 2014LSAL01158_2, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1668627 29 100.0 32 ............................. AATTAAATGAAATACGACAGCGCACGTTAAAA 1668688 29 100.0 32 ............................. CACCTGGTCGAGGGCTCGAATCGGTGAATAAT 1668749 29 100.0 32 ............................. AAATCCATTCTTGCGATACGATTAATTTACTT 1668810 29 100.0 32 ............................. CAGCCAGTGCCGGTAGTGCAGACGCAGCAGCC 1668871 29 100.0 32 ............................. GCGATTACTGATGGCGGCGTGTGGTTCGGTGA 1668932 29 100.0 32 ............................. TATGCGTAACCAGTAAATAAAACTGTTACGTG 1668993 29 100.0 32 ............................. ATTTCGTTATACCCCTTCACAACCTCGGCAGG 1669054 29 100.0 32 ............................. TTATGCGGCTTTCTACTCCAGTGCGGCGCAAG 1669115 29 100.0 32 ............................. TTGATGTCATGTCGTGTACAGACGCTGCGTCA 1669176 29 100.0 32 ............................. GGTACGCGACATATAACGGCATGGGGCGTGAA 1669237 29 100.0 32 ............................. CGCTGGTTTATGACATCGCCGACATGATCAAA 1669298 29 100.0 32 ............................. ACTGCGTGACGCCGCCATCAGGAATGTTAATA 1669359 29 100.0 32 ............................. GCCATTGAAATCATTAACAGCGATAAAATTTG 1669420 29 100.0 32 ............................. GCGGGTAAAAATGCAGACTGATATCAAACGCA 1669481 29 100.0 32 ............................. TAACCTCTGAATTAAGATGCGGTTTGTACGGC 1669542 29 100.0 32 ............................. CCGGATTAACCGGCTTCATTGTTGGTGGGGGA 1669603 29 100.0 32 ............................. GTGAGCGAATTATCAGTAGTTTCATTGGCGTT 1669664 29 100.0 32 ............................. GCGTACACGGTTAAACTTATATAGTGACACGT 1669725 29 100.0 32 ............................. CCCCGGAAGTGGCCGGGGAAACAAGGCAAGTC 1669786 29 100.0 32 ............................. TACCAGGATACCCTGAAACGCTACCGTGTCCC 1669847 29 100.0 32 ............................. CGCAGCAGCGAAGACCTGAAAGACGCCGTGAG 1669908 29 100.0 32 ............................. GACTGTTTTCATATATCACCCCTTGCTCCAAA 1669969 29 100.0 32 ............................. CAGCGCCCGCCGGTGTTGCGCTACCGCGTGTT 1670030 29 100.0 32 ............................. TATTTTTGCGGGATCAATGTCGGCTCGAGCAC 1670091 29 100.0 32 ............................. CCATTGATGAGGCTATCGCAGCCGCACAACGG 1670152 29 100.0 32 ............................. ATTTAACGCGTTTTTTGGGTTTTCCCCTTATG 1670213 29 100.0 32 ............................. TCTCGCCGCATAAAAAAAACACAGCTCTACTA 1670274 29 100.0 32 ............................. TTATCGGACTGGTCAAAGAACTCCGCGAACTG 1670335 29 100.0 32 ............................. AATGGTTCGATATGAGCAATAAAGAACCTGAC 1670396 29 100.0 32 ............................. TTACGATCAAATGTTAGCGTCATTTTATGACC 1670457 29 100.0 32 ............................. GCAGTCGCTGACCTGTACGCCCTGTGCTGGCA 1670518 29 100.0 32 ............................. CGCTCGCATGATGGCGCGATTACTTAATGTCA 1670579 29 100.0 32 ............................. AAAAAACAATGGTTTTACCGTCCGACTGAACA 1670640 29 100.0 32 ............................. TCTCGCCAGTGGCCTGAACCGAAAGACGGTGA 1670701 29 100.0 32 ............................. CACATCACGGATGTGGTCTGCATTTTGAAATC 1670762 29 100.0 32 ............................. GAAATAACTATGTTTTGCTCTGCATTATCTTC 1670823 29 100.0 32 ............................. GAAATAACTATGTTTTGCTCTGCATTATCTTC 1670884 29 100.0 32 ............................. GAAATAACTATGTTTTGCTCTGCATTATCTTC 1670945 29 100.0 32 ............................. GAAATAACTATGTTTTGCTCTGCATTATCTTC 1671006 29 100.0 32 ............................. TTGACGCGGAGATATATTCATTCAATAAATCC 1671067 29 100.0 32 ............................. CGGAACTTGTAAAGGCGACGCAGGGTTTAACC 1671128 29 100.0 32 ............................. TATGGAAATCAAGGCGCTGGCAGACGGGGAGT 1671189 29 100.0 32 ............................. GTCTGACCAGTGGCGTGGGGGGATTGCAATTT 1671250 29 100.0 32 ............................. CGAAGTTTCAGGCGTTACCGCCTGCGGAACGG 1671311 29 96.6 32 ....A........................ AAGACAACTCCTGTCTTTCCATCACTCGAAGC 1671372 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 1671433 29 96.6 0 A............................ | A [1671459] ========== ====== ====== ====== ============================= ================================ ================== 47 29 99.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGTCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTAGAGATCTTTAAAAATTAGGAAAAGTTGGTGGTTTTTTTGTGTGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCACTAATGCTCGATCGCGGGTCAGTGTACGCACTGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 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 [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [73.3-48.3]%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], //