Array 1 847875-846904 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP079205.1 Riemerella anatipestifer RA-YM chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== =============================================== ============================== ================== 847874 47 95.7 30 ........C...............A...................... AGCGCAGTGACAATGCCGACAACATGTTGC 847797 47 95.7 30 ........C...............A...................... AACCCGGCGGCATGGAAATCAGCCAGATGG 847720 47 95.7 30 ........C...............A...................... TTTCGGTTGCTATCCGAAACGATTCGGATC 847643 47 95.7 30 ........C...............A...................... GAGGTGTTGTCATATCTCAATCTCGTCTAT 847566 47 95.7 30 ........C...............A...................... TACTTCGTTTATTAGTTTTATTGCAATGTT 847489 47 95.7 30 ........C...............A...................... TAGATACATCTCTTTATCTTCGTGTAAAAT 847412 47 100.0 30 ............................................... GTCTTTGAGGTAAGGTTTTGTCAAATCCCA 847335 47 100.0 30 ............................................... TAATGGAGATTATAATATCCAGATACAAAC 847258 47 100.0 30 ............................................... TCTATCGAAGTGTTTAAAAACACTTGATTT 847181 47 100.0 30 ............................................... GATATAGTATCAGATGAACCGACAACGGAC 847104 47 100.0 30 ............................................... TGATTGACTCTATTTTCTCCTGTGCAGATA 847027 47 100.0 30 ............................................... TTATTAAAAGTTTTCCGATACTTCCTATGT 846950 47 93.6 0 ........C..................................T..T | ========== ====== ====== ====== =============================================== ============================== ================== 13 47 97.5 30 GTTGCGAATTATCACAAAGATAGTGAAAATTGAAAGCAATTCACAAC # Left flank : CTGTTTATAAATGTTATACTGGAGAAAAAAGACAAATATCTGTGCCTGAGTTTTATGAAGTTTAATCGTTTTAATGCTTATAGAGTTATGTGGGTTATGGTGTTATATGATTTACCAACAGAAACCAAAGCGATGAGAAAAGCAGCTCAACTTTTTAGAAAACGCTTGGAAGATGATGGGTTTAGTCTTTTCCAATTTTCCATTTATATACGGCATTGTCCTAGTCGAGAAAATGCGGAAGTACACATCAAAAGAGTAAAATCAATACTTCCCAAGCATGGCAAGGTAGCTATAATGAGCATTACAGATAAACAGTTTGGAGATATTGAAATTTTCTTTGCGAGAGCTAAAGAGGAACCAAAACCAACCTATCAGCAATTAGAACTTTTTTAGGAATAGAAAAAGACTTTACATCAAACAAAAATAGAGAAGAAATAGTAAAAAATCTAATCCTATAAAAACGCAAAACCCATTGAAAAACAATGGGTTTATTTTTTGAG # Right flank : ATTACTGTTTGTTATTGGTTTTATTTTTTAAGATATAAAACACGCTTCCAATTATGTAAACCGACACAATTAAATTAGATACTAAATTAAAAATCCCTATACTCCCAAAATCCATTACAATGTAGTAGGAATTATAAATGATATAAAAAATAGAAAATACAATAAGTATAAAATATAGCATAGAGTTTTTCATTTTTATAAATTGCAAGCTGTTACAAAGATAAAAAAAGAGCTACCTCCAAGAGGTAGCTCTACGTTTTTAAATTGAGATATTCAGTCTACTTTAAAGTAATATTGTCTATTTGTACAGTAGTAGTTACAGTAGTGTTACCTGCATATTCAAAAAAGATATAACCTTTTCCTGTAGCAGGAATTGCAAATTCGCCACTATCTACCCAATCGGCAGCATAGCCATTAGTATTTTCTTTTGAAAGAGTAAACTTAGAAGTAATATCTATTAGGTCGGTTTTATTTACAACTCCGCCAGGTGTATATTTCGT # Questionable array : NO Score: 5.91 # Score Detail : 1:0, 2:3, 3:0, 4:0.88, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.77, # 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 : GTTGCGAATTATCACAAAGATAGTGAAAATTGAAAGCAATTCACAAC # Alternate repeat : GTTGCGAACTATCACAAAGATAGTAAAAATTGAAAGCAATTCACAAC # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: R Score: 4.5/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:68.09%AT] # Reference repeat match prediction: F [matched GTTGTGAATTGCTTTCAATTTTTACTATCTTTGTGATAGTTCGCAAC with 96% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-4.50,-4.10] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [78.3-73.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [4.87,4.91 Confidence: LOW] # Array family : II-C [Matched known repeat from this family], // Array 2 1685202-1687301 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP079205.1 Riemerella anatipestifer RA-YM chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ================================================================================== ================== 1685202 36 91.7 30 .................G.....TG........... ACTAGTAAAATAATAACGATATGAGAAATT Deletion [1685268] 1685268 35 83.3 80 ................-.....CT....T..A...A CTCCGCTGAAAATATAACGAAGCGTGAGCTAAAATGAGAGCAGTCCCAACACAACAGCAATGCAAGAAAGTATAGGAAAT T [1685293] 1685384 35 83.3 79 .......G........-.....TT....T...G... TCCGCTGAAACAACAACAAAGTCGTGAGTAAAATGAGAGCAGTCCCAACTTCGAGGGCGATTAGCTGGACTTAATCGGC C,A [1685409,1685416] 1685500 35 83.3 79 ................-.....TA..T.T...G... TCCGCTGAAAATATAACGAAGCGTGAGCTAAAATGAGAGCAGTCCCAACACAACAGCAATGCAAGAAAGTATAGGAAAT CT,A [1685522,1685533] 1685617 35 83.3 79 .......G........-.....TT....T...G... TCCGCTGAAACAACAACAAAGTCGTGAGTAAAATGAGAGCAGTCCCAACTTCGAGGGCGATTAGCTGGACTTAATCGGC C,A [1685642,1685649] 1685733 35 83.3 79 ................-.....TA..T.T...G... TCCGCTGAAAATATAACGAAGCGTGAGCTAAAATGAGAGCAGTCCCAACACAACAGCAATGCAAGAAAGTATAGGAAAT CT,A [1685755,1685766] 1685850 35 83.3 79 .......G........-.....TT....T...G... TCCGCTGAAACAACAACAAAGTCGTGAGTAAAATGAGAGCAGTCCCAACTTCGAGGGCGATTAGCTGGACTTAATCGGC C,A [1685875,1685882] 1685966 35 83.3 79 ................-.....TA..T.T...G... TCCGCTGAAAATATAACGAAGCTGTGAGTAAAATGAGAGTAGTCCCAACAGACCTAGCAGATGACGGTAAACTAAACGG CT,A [1685988,1685999] 1686083 35 83.3 82 .......G........-.....TT....T...G... TCCGCTGAAAACTTACAACAAAGCTGTGAGCTAAACTGAGAGCAGTCCCAACTTTCTGTGTTTTGTGCTGTAGCCTTAATAT C,A [1686108,1686115] 1686202 35 83.3 81 .....T..........-.....CT....T...G... TCCGCTGAAACAACAACAAAGCTTGTGAGCTAAACTGAGAGCAGTCCCAACACTCACAACAACTTAAAATACCAAAATAAA C,A [1686227,1686234] 1686320 35 86.1 81 ................-.....TT....T...G... TCTGCTGAAAACGACAACAAAGTTGTGAGCTAAACTGAGAGCAGTCCCAACAATCAGACTTAGCAGATACTCGTGAAAAAA T,A [1686345,1686352] 1686438 35 83.3 80 .......G........-.....TT....T...G... TCCGCTGAAAATACAACGAAGCTGTGAGCTAAAATGAGAGCAGTCCCAACTTGGACGAATAATACGCCATTGTTTAACTC C,A [1686463,1686470] 1686555 35 86.1 80 ................-.....CT....T...G... TCCGCTGAAACTACAACAAAGCTGTGAGCTAAAATGAGAGCAGTCCCAACGGAAGGTAGAATTGAATGTTTTCATGATCT T,A [1686580,1686587] 1686672 36 97.2 30 ...................G................ ATAGCAGTAGAACCATCAAACGCTGTGGCT Deletion [1686738] 1686738 36 97.2 30 ...................G................ TGTGCTTCCTACAACGAGTAGCGTTCCTTT Deletion [1686804] 1686804 36 97.2 30 ...................G................ TTAACTAAGTTACCTAGAAGTATAAATGAA Deletion [1686870] 1686870 36 100.0 30 .................................... TCTGCATCTACGAAGGTGATGAGGAAAAGG Deletion [1686936] 1686936 36 100.0 30 .................................... CAATAGGACCTATTATATTTACAACAACAG Deletion [1687002] 1687002 36 100.0 30 .................................... ATTTTGAAAATATAGAGGCGATAAGCCTTT Deletion [1687068] 1687068 36 100.0 30 .................................... ATTCTAAAAGGTACAGAGAATGAAGCTAAA Deletion [1687134] 1687134 36 94.4 30 ...................C........A....... TCAACCAATTTAATCTGCAACTCTGAAATG Deletion [1687200] 1687200 36 97.2 30 ...................C................ TGATAGGAATATTTCTTATTCTATTTTTTA Deletion [1687266] 1687266 36 100.0 0 .................................... | ========== ====== ====== ====== ==================================== ================================================================================== ================== 23 36 90.4 57 GTTGTGAATACCCTTCAAAATGAGAGCAGTCCCAAC # Left flank : CATTAAAATAGATGGGGACAACCCTAAAAACGGTATTGTCTTTAAAAACTTAGACACTCAGCAAGAAGTGAAACTCTCAGCAGAGCATATTGTCCTTAATGAGCCGTCAAGGTTACTCATTCTCGTTCCTACAGATTTAGAAGCGGGTAACTATGAACTCAGCATCACCACGCAAAGCAGTAAAGGCACTACCTTACTGAAAGAACCCCGAACCGAAACACTAAGCACGCCTATTACTATTGTGTAGTGTGTTTTTGGCACTTCTAAATAAAGACCGCCCTTCCTTAATGCTAAGGAAGGGCGGTCGCTTTATAAGAGGAAGACACTTCACTGCCTAAGGCGAAGGCTCTTCTCTCGGTAAGGAGAAGAGCCTTCCCTCGTACGAGGGAACCGACTTCGCCTGTACTAAGGAAGTGAGGTATTTTCTGTAATAGAATAAATAGGAAGCAAAATCCCTGCTCTGTACCGTACAGAGCAGGGATTTTTTTATGCCCTTAGGT # Right flank : CTTAGGAGCAAATAAGCTGTATTTATTGGTGTTGTGAATACCCTTCAAATGCTGTGCATTATTGTTATGATAGGGTATTGTCTTTTTTGGGTGCTTGTTTTATCTCGATGTTTCAAAGAACGCTTTTCTTTACAACGCTTTTAAATCGCGTTGTTCTATTTTTAGGCATTGCCTAATGCTTTGGCTCAACTTATGATGCAGCACCTTCATTCTGGTAGCCGCCTCTTCGTTTTTTAGTCGGAACTCCGCCTCGGTGCTGTTTTGCTCTGCAAGTAGGAGCTTATGAACGATACTACGGTACTCAAAAAACTTTTTGGTGACTTCCTCAGATAAGAAGAGCCCACAGCCCTCCCCATAAAATAGTTCTGGGAGCTCCCTTAGAAAGGCTTGGGCATTGGCTCGGTTAATATAATGAATTTTATCCTTTTGCCCTTTGGGAACTTCCCATTTTAAGAGGTTTTTGGGGTTGTCTTGGTCGGTCATATACGCCAGCAGACGGT # Questionable array : NO Score: 3.26 # Score Detail : 1:0, 2:3, 3:0, 4:0.52, 5:0, 6:0.25, 7:-1.81, 8:1, 9:0.30, # 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 : GTTGTGAATACCCTTCAAAATGAGAGCAGTCCCAAC # 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: NA [Repeat is AT rich:55.56%AT] # Reference repeat match prediction: F [matched GTTGTGATTACCCTCCAAAATGAGAGCAGTTCCAAC with 92% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [0.00,-5.30] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [61-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [55.0-65.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.5,1.05 Confidence: MEDIUM] # Array family : II-C [Matched known repeat from this family], //