Array 1 3023538-3021556 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCIN01000001.1 Salmonella enterica subsp. enterica serovar Derby strain 2015LSAL01716 2015LSAL01716_1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 3023537 29 100.0 32 ............................. TTGAGGTTTGCGTTGAGCCTGTTCAGCATCAC 3023476 29 96.6 32 ............................C GCTGACTCTGCGGCGGATCTTCTCAACCAGTC 3023415 29 100.0 32 ............................. CCTAGAAAAGTTTGTTTAGGCAATCAAGCCCC 3023354 29 100.0 32 ............................. GTGTTAATTAATGAGTTTATTCCGTTTTAACA 3023293 29 100.0 32 ............................. AAATTTGGTTGACAGTAAAAGAGTGTGTCGGT 3023232 29 100.0 32 ............................. TCGGCTCGAGCACTTGCGACAACAAACACACG 3023171 29 100.0 32 ............................. GCGTTGAACTTGATATTCTCTACACCGATGCA 3023110 29 96.6 32 ..C.......................... ATATGAGGCAGCTCGCTGGCGGCTGGGATGGT 3023049 29 100.0 32 ............................. CCGTTTTTTTCCCACAGTTTGCCACCGAGACG 3022988 29 100.0 32 ............................. TTAAGTCGCTCTTTGTACGCTACACCGGAGGC 3022927 29 100.0 32 ............................. AAATATCCAGAGCTGGGCTTGAGGCTGACGGT 3022866 29 100.0 32 ............................. TAATTGACATACATTCACCATATTAAGGAAGA 3022805 29 100.0 32 ............................. CCATGCGCGGCGGCGCTTGCCCAGCTCAGAAA 3022744 29 100.0 32 ............................. GTAGTCTTCATATGCAGCGACATCATTGCCGA 3022683 29 100.0 32 ............................. GTCATTTTCTTGTTAATGGCGCTTGCATTAAC 3022622 29 100.0 32 ............................. CTGTGTGGTCTGTGCATAACGGTGTAACAGAG 3022561 29 100.0 32 ............................. AAAAATAGTCCTGAACGATAGCCCGCGCGGTC 3022500 29 100.0 32 ............................. CAGGAGTGGCTGGAGACTGTCGTCAAGCCTGA 3022439 29 100.0 32 ............................. GACCTATCAGCCTAATTTCCGGGGCAAGAGCT 3022378 29 100.0 32 ............................. ATTACGGGATAATAGTTTTGGTAATGGGTTGC 3022317 29 100.0 32 ............................. CCGCCAATATAAAGAACACTTTTATTTAAATA 3022256 29 100.0 32 ............................. GCGTTTATTTTTGATTTGTTATTTGGACGTTA 3022195 29 100.0 32 ............................. TTCCGGTCCTGCCCACTATTCGACAAAATCAG 3022134 29 100.0 32 ............................. GCTGATATCCGCCTGATTGGTGATCTGCGTCG 3022073 29 100.0 32 ............................. AATCCACATCCTGTTTAGCTCCATATAGCCCC 3022012 29 100.0 32 ............................. CCGAATTTCTCCGCGAACGCCCACCAGTCGCG 3021951 29 100.0 32 ............................. AGTTCGCCAGCGGTGCCCGCGATCTGGAGCTG 3021890 29 100.0 32 ............................. TCGCTTATCTTGAAATCGTCATCGGTCAGACC 3021829 29 100.0 32 ............................. GATCATCACCCAGGCATTTTCTGGAATATGAA 3021768 29 100.0 32 ............................. AATCCCGATGATCATGAATATTTCTGGCGCCA 3021707 29 100.0 32 ............................. GCAGAAACAGAAACCGGATATGAGCCATCCAT 3021646 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 3021585 29 96.6 0 A............................ | A [3021558] ========== ====== ====== ====== ============================= ================================ ================== 33 29 99.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCCCCTCAGCCTGCGTCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTCAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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 [2-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-70.0]%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 3041474-3039796 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCIN01000001.1 Salmonella enterica subsp. enterica serovar Derby strain 2015LSAL01716 2015LSAL01716_1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3041473 29 100.0 32 ............................. AGCGCCGATCCGGTGGTGTCCAACACAACGAA 3041412 29 100.0 32 ............................. GCTTCTGATTGCATTAGCTCCAAATCAGTACC 3041351 29 100.0 32 ............................. GCGTCAGGCGTGGTGGCCGTGATTACGGACGA 3041290 29 100.0 32 ............................. GCGTGCGCCGGGATATTGCGCCGCGCCGAGAA 3041229 29 100.0 32 ............................. GGCTAACCCATGAACACTATTACCAAATTCAC 3041168 29 100.0 32 ............................. GTTGCCGCCCTTACTGCGCGAGGCGTTGGAAC 3041107 29 100.0 32 ............................. GAGGGGCCGTCTGCCGCATATCAAACGCTATC 3041046 29 100.0 32 ............................. CAACACGAAAGAAAAAATACTCAATATTATTG 3040985 29 100.0 32 ............................. AAAATCATCATGGCCAGCGCTGGCGCGCTCGC 3040924 29 100.0 32 ............................. AATGATTATATCGATCGACCAATCGATGAGCA 3040863 29 100.0 32 ............................. TCGGTGAGACAAATCATTCCAGATTGATCAAC 3040802 29 100.0 32 ............................. AATTTAAACAGTAATTTAAAATTGTTAGCGTC 3040741 29 100.0 33 ............................. GCAACGGCGGCGCGGCATTCTGCGGTGCAAATA 3040679 29 100.0 32 ............................. GATTCCAGCGCGCCAAAATCAGGAGATTCCGT 3040618 29 100.0 32 ............................. CCCCCGGCATTCGGCTATGCCTATTCATATGT 3040557 29 100.0 32 ............................. TGGTCACTACCGTCTATCTCTTCCGGATACAC 3040496 29 100.0 32 ............................. CTTGCAGCCGAATACGGTATAGAGTGGGACGG 3040435 29 100.0 33 ............................. GCCTGTCCTGCGTCAGCGTTACCAGCTTCATGC 3040373 29 100.0 32 ............................. AAATTCAATTACGACTCGCTGCCTGACGGGGT 3040312 29 100.0 32 ............................. ATTTTGAGCGGACGGGAGCTGGCCGAATGACC 3040251 29 100.0 33 ............................. CGGTTTTTACTTTTGCTGCATTCCGCCTCCCGG 3040189 29 100.0 32 ............................. TCCTGGCAGGAATACAAACTTGTGATGCTGCG 3040128 29 96.6 32 .............T............... ACCGCAGGCGCAGCGGCAATATTCTGGTTCAA 3040067 29 96.6 32 .............T............... TCGTTTCTGGGAGCGGGTCTTTCCAGTATTGC 3040006 29 96.6 32 ...........C................. CAGGGGAAGAGGTTCCGGCCCAGCAGTTCTAT 3039945 29 100.0 32 ............................. CTGCTGGGTCGTGTTTGACTCAACGCTCCCCA 3039884 29 100.0 32 ............................. ATTTTAGAATTACGCATTGAGCCGATGATGTA 3039823 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 28 29 99.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTCGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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: 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 [6-0] 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], //