Array 1 2912125-2910143 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCLH01000001.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL03348 2014LSAL03348_1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 2912124 29 100.0 32 ............................. TTGAGGTTTGCGTTGAGCCTGTTCAGCATCAC 2912063 29 96.6 32 ............................C GCTGACTCTGCGGCGGATCTTCTCAACCAGTC 2912002 29 100.0 32 ............................. CCTAGAAAAGTTTGTTTAGGCAATCAAGCCCC 2911941 29 100.0 32 ............................. GTGTTAATTAATGAGTTTATTCCGTTTTAACA 2911880 29 100.0 32 ............................. AAATTTGGTTGACAGTAAAAGAGTGTGTCGGT 2911819 29 100.0 32 ............................. TCGGCTCGAGCACTTGCGACAACAAACACACG 2911758 29 100.0 32 ............................. GCGTTGAACTTGATATTCTCTACACCGATGCA 2911697 29 96.6 32 ..C.......................... ATATGAGGCAGCTCGCTGGCGGCTGGGATGGT 2911636 29 100.0 32 ............................. CCGTTTTTTTCCCACAGTTTGCCACCGAGACG 2911575 29 100.0 32 ............................. TTAAGTCGCTCTTTGTACGCTACACCGGAGGC 2911514 29 100.0 32 ............................. AAATATCCAGAGCTGGGCTTGAGGCTGACGGT 2911453 29 100.0 32 ............................. TAATTGACATACATTCACCATATTAAGGAAGA 2911392 29 100.0 32 ............................. CCATGCGCGGCGGCGCTTGCCCAGCTCAGAAA 2911331 29 100.0 32 ............................. GTAGTCTTCATATGCAGCGACATCATTGCCGA 2911270 29 100.0 32 ............................. GTCATTTTCTTGTTAATGGCGCTTGCATTAAC 2911209 29 100.0 32 ............................. CTGTGTGGTCTGTGCATAACGGTGTAACAGAG 2911148 29 100.0 32 ............................. AAAAATAGTCCTGAACGATAGCCCGCGCGGTC 2911087 29 100.0 32 ............................. CAGGAGTGGCTGGAGACTGTCGTCAAGCCTGA 2911026 29 100.0 32 ............................. GACCTATCAGCCTAATTTCCGGGGCAAGAGCT 2910965 29 100.0 32 ............................. ATTACGGGATAATAGTTTTGGTAATGGGTTGC 2910904 29 100.0 32 ............................. CCGCCAATATAAAGAACACTTTTATTTAAATA 2910843 29 100.0 32 ............................. GCGTTTATTTTTGATTTGTTATTTGGACGTTA 2910782 29 100.0 32 ............................. TTCCGGTCCTGCCCACTATTCGACAAAATCAG 2910721 29 100.0 32 ............................. GCTGATATCCGCCTGATTGGTGATCTGCGTCG 2910660 29 100.0 32 ............................. AATCCACATCCTGTTTAGCTCCATATAGCCCC 2910599 29 100.0 32 ............................. CCGAATTTCTCCGCGAACGCCCACCAGTCGCG 2910538 29 100.0 32 ............................. AGTTCGCCAGCGGTGCCCGCGATCTGGAGCTG 2910477 29 100.0 32 ............................. TCGCTTATCTTGAAATCGTCATCGGTCAGACC 2910416 29 100.0 32 ............................. GATCATCACCCAGGCATTTTCTGGAATATGAA 2910355 29 100.0 32 ............................. AATCCCGATGATCATGAATATTTCTGGCGCCA 2910294 29 100.0 32 ............................. GCAGAAACAGAAACCGGATATGAGCCATCCAT 2910233 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 2910172 29 96.6 0 A............................ | A [2910145] ========== ====== ====== ====== ============================= ================================ ================== 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 2930061-2928383 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCLH01000001.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL03348 2014LSAL03348_1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 2930060 29 100.0 32 ............................. AGCGCCGATCCGGTGGTGTCCAACACAACGAA 2929999 29 100.0 32 ............................. GCTTCTGATTGCATTAGCTCCAAATCAGTACC 2929938 29 100.0 32 ............................. GCGTCAGGCGTGGTGGCCGTGATTACGGACGA 2929877 29 100.0 32 ............................. GCGTGCGCCGGGATATTGCGCCGCGCCGAGAA 2929816 29 100.0 32 ............................. GGCTAACCCATGAACACTATTACCAAATTCAC 2929755 29 100.0 32 ............................. GTTGCCGCCCTTACTGCGCGAGGCGTTGGAAC 2929694 29 100.0 32 ............................. GAGGGGCCGTCTGCCGCATATCAAACGCTATC 2929633 29 100.0 32 ............................. CAACACGAAAGAAAAAATACTCAATATTATTG 2929572 29 100.0 32 ............................. AAAATCATCATGGCCAGCGCTGGCGCGCTCGC 2929511 29 100.0 32 ............................. AATGATTATATCGATCGACCAATCGATGAGCA 2929450 29 100.0 32 ............................. TCGGTGAGACAAATCATTCCAGATTGATCAAC 2929389 29 100.0 32 ............................. AATTTAAACAGTAATTTAAAATTGTTAGCGTC 2929328 29 100.0 33 ............................. GCAACGGCGGCGCGGCATTCTGCGGTGCAAATA 2929266 29 100.0 32 ............................. GATTCCAGCGCGCCAAAATCAGGAGATTCCGT 2929205 29 100.0 32 ............................. CCCCCGGCATTCGGCTATGCCTATTCATATGT 2929144 29 100.0 32 ............................. TGGTCACTACCGTCTATCTCTTCCGGATACAC 2929083 29 100.0 32 ............................. CTTGCAGCCGAATACGGTATAGAGTGGGACGG 2929022 29 100.0 33 ............................. GCCTGTCCTGCGTCAGCGTTACCAGCTTCATGC 2928960 29 100.0 32 ............................. AAATTCAATTACGACTCGCTGCCTGACGGGGT 2928899 29 100.0 32 ............................. ATTTTGAGCGGACGGGAGCTGGCCGAATGACC 2928838 29 100.0 33 ............................. CGGTTTTTACTTTTGCTGCATTCCGCCTCCCGG 2928776 29 100.0 32 ............................. TCCTGGCAGGAATACAAACTTGTGATGCTGCG 2928715 29 96.6 32 .............T............... ACCGCAGGCGCAGCGGCAATATTCTGGTTCAA 2928654 29 96.6 32 .............T............... TCGTTTCTGGGAGCGGGTCTTTCCAGTATTGC 2928593 29 96.6 32 ...........C................. CAGGGGAAGAGGTTCCGGCCCAGCAGTTCTAT 2928532 29 100.0 32 ............................. CTGCTGGGTCGTGTTTGACTCAACGCTCCCCA 2928471 29 100.0 32 ............................. ATTTTAGAATTACGCATTGAGCCGATGATGTA 2928410 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], //