Array 1 224562-222824 **** Predicted by CRISPRDetect 2.4 *** >NZ_JADDIE010000005.1 Salmonella enterica subsp. enterica serovar Kentucky strain SGEHI2016-PSU-BS-037SL opera_scaffold_5, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 224561 29 100.0 32 ............................. TGTACAGTGTCAGTTATTACCTGACACATGTC 224500 29 100.0 32 ............................. CTGCATAATTGGCCTGGCAAGGTCAGTGAAAG 224439 29 100.0 32 ............................. TAAGAGGCGGTATCATTTTTGTCTTCGGGCGG 224378 29 100.0 32 ............................. ACGTGGATCTGGTTTCCGGTACGGTGCACGTT 224317 29 100.0 32 ............................. GCCGTTGATAAAAAAACGGGCGAACTGGACAA 224256 29 100.0 32 ............................. AAGAACGTTTGCAACTCCCTGGTGAAGCGGTG 224195 29 100.0 32 ............................. TTTTTTGCGTCCCTGCCTCCGGATGAACAGGA 224134 29 100.0 32 ............................. ACCTCAATAAAAATTTACACCGCCACACCGGC 224073 29 100.0 32 ............................. GCGATGCTCAGGATTCAGAATCTGAACGTCCA 224012 29 100.0 32 ............................. ACGCTGAACCTGAAAAGCACGTTGCCGGGCGA 223951 29 100.0 32 ............................. GATGGACACCACAACTACGCGGCGGCAAAACT 223890 29 100.0 32 ............................. ATCGGGGAGGTTGTGCAAGGGATTTTATCGTG 223829 29 100.0 32 ............................. TCAGCAAAAAAGACCTGTTTGCCGATATGGGG 223768 29 100.0 32 ............................. AACCGGAGGGGGTTCCTGCCGGGTACGCATAA 223707 29 100.0 32 ............................. CAGCCCCTCTAAAATTGTTGCCCGCCACGTAA 223646 29 100.0 32 ............................. AAAACCAGCGATAACGGGCGGGCGTTTATACG 223585 29 100.0 32 ............................. CGACGCCCGATTCCTGTTGCCAGCGCCCCGCA 223524 29 100.0 32 ............................. GCCGCTATCACCAACGACCCGGGCGTTGTTGG 223463 29 100.0 32 ............................. TTCCGTCGTGTAGCCCGCTGGTTTGGGTCGGA 223402 29 100.0 32 ............................. TTGTTATCCCGCCTGTGGTTTAATCGCGAGTG 223341 29 100.0 32 ............................. CCGGGTGCATCATGCAAAATCCTATAAGGAAA 223280 29 100.0 32 ............................. AATTGTCAGTGTAATTGCGCATATCGTTCGTT 223219 29 100.0 32 ............................. AAAAAAGGGAAAAAGGGGGGGCTGTTTCTCCT 223158 29 100.0 32 ............................. CCATCCGAAAAAGCCGCGTTTACGCCGATGTT 223097 29 100.0 32 ............................. CTCTCAAATGCCTGCCACATCACGCGCGACGC 223036 29 100.0 32 ............................. AGTAATCAACTCAATGCGCTCACAACGCAATG 222975 29 100.0 32 ............................. TCCACGTCGCCCGCCATCAGGTTCGCCAGCTC 222914 29 89.7 32 ............T....C....G...... AACTGGTACACCCGCCTGACGTTTGTTCAGCT 222853 29 96.6 0 ............T................ | A [222826] ========== ====== ====== ====== ============================= ================================ ================== 29 29 99.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CGGGTTGATACACGCAAAGAGGTTGAGCGTAGCGTAGATATTGGCTGGCTACATAGTGAAGAGTCGTGTCTTGAACGTATAGGTGAAGCAGTGGAAAAAGGAAACTGTATCGCCTGGATACGTAACTCCGTTGATGATGCGATTCGTATCTATCGCCAGCTTCAACTGAGTAAGGTCGTCGCCACGGAAAACCTTTTACTCTTCCATAGTCGCTTTGCTTTTCACGATCGTCAGCGGATTGAGTCGCAGACGCTGAATCTCTTTGGCAAACAGAGCTGCGCGCAACGTGCCGGTAAGGTCATTATCGCCACGCAGGTCATCGAACAAAGTCTGGATATTGACTGCGATGAGATGATCTCTGATTTAGCGCCGGTGGATTTATTAATTCAGCGGGCCGGTCGACTACAGCGTCATATTCGCGATCGTAACGGTCTGGTGAAAAAGAGTGGGCAGGATGAGCGAGAGACGCCAGTGCTGCGCATTCTTGCTCCGGAGTGGGA # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCGTCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [5-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [50.0-40.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 235534-234225 **** Predicted by CRISPRDetect 2.4 *** >NZ_JADDIE010000005.1 Salmonella enterica subsp. enterica serovar Kentucky strain SGEHI2016-PSU-BS-037SL opera_scaffold_5, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 235533 29 100.0 32 ............................. TCGTCCGAACGTACCCTGGCTGTCCAGGCCGC 235472 29 100.0 32 ............................. TATCGTTCCACTGGTTCATCAGCGTCCAGTTG 235411 29 100.0 32 ............................. CTCACCCGATTAAACAAGAGGAGCGCAGAAAC 235350 29 100.0 32 ............................. TTTATATCCAGTTTTCGGCAGAAGCGCCGCAA 235289 29 100.0 32 ............................. CAGTATTTCGGCATGGCAAGCCGCAGCGCGAA 235228 29 100.0 32 ............................. ATAATCGGGATACATTTTGTTGTCCGGGTGGC 235167 29 100.0 32 ............................. TCAGAGCCTTTTTGATGAAGTACTACGGCAAC 235106 29 100.0 32 ............................. GCGTACAGCCGTATGCCTCAGACTCCCCACGA 235045 29 100.0 32 ............................. GCGCACCGCTTTAGAGTGCCAGGCATAGGCAA 234984 29 100.0 32 ............................. GGCCGATATACAGTTTTTACTGTGGGATGCGC 234923 29 100.0 32 ............................. TTTACGGGCGCACAGCGAAAACTACCGAAACC 234862 29 100.0 32 ............................. CGGAAATTCAGGGAACCCCGGAAGCGATTAGA 234801 29 100.0 32 ............................. CAGCGCAGACTACTGGCGCTGACGGCTCGTAC 234740 29 100.0 32 ............................. CCTCCGGAAGAGCGGAATCCGACATAATTATT 234679 29 100.0 32 ............................. ACTCGCTTATGCATAGTGACAATTGGGCAACC 234618 29 100.0 32 ............................. TTGAAAGAGCAATTAGCGCCGCTGGCATCAAG 234557 29 100.0 32 ............................. GCGCCGCGCAGTTCGTGGACGCGAAACGGATT 234496 29 100.0 32 ............................. CTACACATGCACCGGGTATCCGTGAGCATGAT 234435 29 100.0 32 ............................. GCGGGCATGTAAATAGCAGGTCAGCAGATACG 234374 29 100.0 32 ............................. ACACAAATGCAGTTAGCTAATCGTGCATGGCG 234313 29 100.0 32 ............................. GCAACAGTGCTGGTGGAATTAAAAACACCGAC 234252 28 96.6 0 .........................-... | ========== ====== ====== ====== ============================= ================================ ================== 22 29 99.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGGGCTGGAGCGGATAAATCGTTGAAGGCCAGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-70.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //