Array 1 2921933-2920316 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCKD01000027.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL03973 2014LSAL03973-D4_27, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 2921932 29 100.0 32 ............................. CGAATATATATGATATCGAATAACGAAGCAAA 2921871 29 100.0 33 ............................. CGCCTGATCCCGGTACTCCAGAGTATTTCCAGT 2921809 29 100.0 32 ............................. TCTAACACTCAAAGGTGGAATGACAGAGCCTT 2921748 29 100.0 32 ............................. TTTGCCACGCACCGCAAACAGGCAGTCTTCAC 2921687 29 100.0 32 ............................. CACGCCGCCATCACTGACAGCACAAAAACAAA 2921626 29 100.0 32 ............................. GATGAGTACATGGAAAGCTTTAAGCAAAAGTT 2921565 29 100.0 32 ............................. GCGATAGCTGTTTTCATAACGTGATCTCCAAT 2921504 29 100.0 32 ............................. GGGTAAAAAACTATACGATCCGCGCTTAGGGG 2921443 29 100.0 32 ............................. GGACAATTTGTGCTTTTGCAATTCACTTTGAA 2921382 29 100.0 32 ............................. CTGATTGACATGACGTCCGGCGACGACTGGAA 2921321 29 100.0 32 ............................. GTCTATAACCGTCGCCTCACGACTCGGCATGT 2921260 29 100.0 32 ............................. CGCCCGGAATCAGCGCCGTCTATTGAGGGGTT 2921199 29 100.0 32 ............................. AACGATATCACCGTACTGGCGAAAACGCTGCG 2921138 29 100.0 32 ............................. CCCGATAATTCTATATCGGGCATTGATTACTG 2921077 29 100.0 32 ............................. ACTGGCAGCACATAACCGGTTCGGACGCAGCC 2921016 29 100.0 32 ............................. AGATTGAGCGCCGCACTAACCAGCGCATGATC 2920955 29 100.0 32 ............................. GTTGGCAGCATGATCGCTAAATCTAAAATGCC 2920894 29 100.0 32 ............................. GCTGCGTTCAACAACGGGGAAATGCCGGAGAA 2920833 29 100.0 32 ............................. GAGAGGCCGACTCAGCAACCAAAAAAGGGAAG 2920772 29 100.0 32 ............................. AACGCGCAGCGCAGCAAAAAGCCGAGCTGGAG 2920711 29 96.6 32 .............T............... CGTGACTACTGCAACTTAAATCACGACGAAAT 2920650 29 96.6 32 .............T............... TCTCTGCCGCTACCGCGCTGGACTGCGCCGCC 2920589 29 100.0 32 ............................. AGTAATCAACTCAATGCGCTCACAACGCAATG 2920528 29 100.0 32 ............................. CCAGATCGCGCAAATCGCTGCGAGTATTCAGG 2920467 29 96.6 32 ............T................ TCCACGTCGCCCGCCATCAGGTTCGCCAGCTC 2920406 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 2920345 29 93.1 0 A...........T................ | A [2920318] ========== ====== ====== ====== ============================= ================================= ================== 27 29 99.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTAGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTAGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAATAAAAAAGGGCTTTTAGAACAAATACATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGAACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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 [4-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [51.7-70.0]%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 2939211-2938573 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCKD01000027.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL03973 2014LSAL03973-D4_27, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 2939210 29 100.0 32 ............................. ACAACGCCGGGCCGGGGCGGGGGGCGGAAGCT 2939149 29 100.0 32 ............................. CCGCATCATTACTGACCTGAACGCCCCGCAAG 2939088 29 100.0 32 ............................. CCTGACAATTTGAAATACTCCGCTGAAATGAT 2939027 29 100.0 32 ............................. TCAACGGCCTGCCGGGTAAATCGGTTCACGTG 2938966 29 100.0 32 ............................. TTGACGAGCGGTGATGTGTGCCGGAGTGGATA 2938905 29 100.0 32 ............................. ATGCGCGTAACGGTCATTATGTTAAATAGAAC 2938844 29 100.0 32 ............................. AACATCGTCGCCAGGCGTTTTTGCATGTCGTC 2938783 29 100.0 32 ............................. CCTCGCCGTCATTCGACATTACGTTCACTCAC 2938722 29 100.0 32 ............................. TAACCATCGTGACGTGTGAAGTTGCCGCCCAG 2938661 29 100.0 32 ............................. ATTTTAGAATTACGCATTGAGCCGATGATGTA 2938600 28 79.3 0 ...........C...A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 11 29 98.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATTGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTTATCCATTACCTTGCATTGTTTATTTTCTCTATGCGAATTTCGATGAGTGTATAAAAGCGCGGATAAATTTTTCCATAGCGATGCATGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTAGTGCTGATAAAAAGTGGTTTATAAACAATGACATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGGAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.16 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 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 [63.3-68.3]%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], //