Array 1 162414-161712 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYUB01000018.1 Salmonella enterica subsp. enterica serovar Saintpaul strain CVM N29360 N29360_contig_18, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 162413 29 100.0 33 ............................. TTGAGCACGACGAAATTTGGGTTTGATGCAGCC 162351 29 100.0 32 ............................. GTTATTCAGTTTATTAAATTTTTCCGCCAAGT 162290 29 100.0 32 ............................. CAACTGTATTTTGCGTTATTACGCTGAACCAG 162229 29 100.0 32 ............................. CCGAGGTCGGAGCGGATTGACTTAAACGGCAA 162168 29 100.0 32 ............................. TGCAACAGCAACAGGAGAGAATGCGGCAGCGT 162107 29 100.0 32 ............................. CGTCAGTTGCTGGAACTGGGGCACGATCTGGT 162046 29 100.0 32 ............................. GAGCGGCTAAACGATGAATTAACCAGGGAGCG 161985 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 161924 29 100.0 32 ............................. GAGACGCCAGATGAATTCTGCGGGACAAGAGA 161863 29 100.0 32 ............................. CGTGGCTGGAGCAATGAACAGATTAAAGGGGT 161802 29 100.0 32 ............................. TCGCACAACGCCTGGATATCCGCCCATCGGCC 161741 29 96.6 0 ............T................ | A [161714] ========== ====== ====== ====== ============================= ================================= ================== 12 29 99.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCACTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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 [2-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 180043-178673 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYUB01000018.1 Salmonella enterica subsp. enterica serovar Saintpaul strain CVM N29360 N29360_contig_18, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 180042 29 100.0 32 ............................. CAACAGCGTCCCGTATTCTGTATCGTTGACGG 179981 29 100.0 32 ............................. CGCATTACTACCGGGATTAGTACCTATCAAAA 179920 29 100.0 32 ............................. GCAGACGCTGCCGTCCCCCCGCTCGACGCTGA 179859 29 100.0 32 ............................. CAGCGGGAAAACGTCCAAGTGCCCATATCCCC 179798 29 100.0 32 ............................. CCTTCAGAACATGCGCGGTATTATTTTTGACC 179737 29 100.0 32 ............................. CCGTGGAAAGAACCAGAACGCTGGATATTGGT 179676 29 100.0 32 ............................. ACCACATCAATGACCACATCACGCAGATATTA 179615 29 100.0 32 ............................. CGCCGTGTTTACTTCAATAGCGACGTTGTGAG 179554 29 100.0 32 ............................. AGGTTGACCATCGTCAGCTTCATAAAGATTTA 179493 29 100.0 32 ............................. GGCGTTATTGAGTGGGAAAAAATCGTAAGCGC 179432 29 100.0 32 ............................. ACGCTCTATAGCCATTAGGTGCGCCACCACTT 179371 29 100.0 32 ............................. CAGCTCTCTAACGACTTCCCCGGAGTACGTAA 179310 29 100.0 32 ............................. CTTGTCGGCGTTGCTCACGTGACTATTTCGCA 179249 29 100.0 32 ............................. CGATAATTTATAAATTTTCGTCCACTCATCAA 179188 29 100.0 32 ............................. ACCGTTATCTGCTGGTTGATACTTCCCCGAGC 179127 29 100.0 32 ............................. CCGCAGAACGCCGCATCGCCGAACTGGACAAA 179066 29 100.0 32 ............................. TGCCGGTTTATCTGCTCCGGACCAATCGACTA 179005 29 96.6 32 ...................A......... CGCCGCCAGCTGGAAAAATGCCGCCTGTTAAT 178944 29 100.0 32 ............................. CTCCAGCCGACGCATTCGCTTGATCGCTTTAT 178883 29 100.0 32 ............................. GGGCTGGACCTCGATTTATTTAATACGTTTAT 178822 29 100.0 32 ............................. TCCCAACTCGTCAGGGCGGTTATCCAGCGCCA 178761 29 100.0 32 ............................. GTCACGAGGTCTGACGCGGATGTGATGAGTTA 178700 28 93.1 0 ........................G-... | ========== ====== ====== ====== ============================= ================================ ================== 23 29 99.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATTAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCGCGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGACATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.24 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 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 [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-68.3]%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], //