Array 1 28967-29706 **** Predicted by CRISPRDetect 2.4 *** >NZ_QXQM01000004.1 Riemerella anatipestifer strain RCAD0179 Scaffold4, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== =============================================== ============================== ================== 28967 47 100.0 30 ............................................... TTCTTAATTGTAATGCTTTAGAAAGTAGTT 29044 47 100.0 30 ............................................... TATCCCATCGCACATCTGTTTTATTTTGTC 29121 47 100.0 30 ............................................... TACTTCGTTTATTAGTTTTATTGCAATGTT 29198 47 100.0 30 ............................................... CACAGGCAGCTCTTGAAAGCGGATGGGGGA 29275 47 100.0 30 ............................................... TACACCGAACAAACTATAAATAAACATTTA 29352 47 100.0 30 ............................................... TAGATACATCTCTTTATCTTCGTGTAAAAT 29429 47 95.7 30 ........T...............G...................... GTCTTTGAGGTAAGGTTTTGTCAAATCCCA 29506 47 95.7 30 ........T...............G...................... GATATAGTATCAGATGAACCGACAACGGAC 29583 47 95.7 30 ........T...............G...................... TGATTGACTCTATTTTCTCCTGTGCAGATA 29660 47 91.5 0 ........T...............G..................T..T | ========== ====== ====== ====== =============================================== ============================== ================== 10 47 97.9 30 GTTGCGAACTATCACAAAGATAGTAAAAATTGAAAGCAATTCACAAC # Left flank : CTGTTTATAAATGTTATACTGGAGAAAAAAGACAAATATCTGTGCCTGAGTTTTATGAAGTTTAATCGTTTTAATGCTTATAGAGTTATGTGGGTTATGGTGTTATATGATTTACCAACAGAAACCAAAGCGATGAGAAAAGCAGCTCAACTTTTTAGAAAACGCTTGGAAGATGATGGGTTTAGTCTTTTCCAATTTTCCATTTATATACGGCATTGTCCTAGTCGAGAAAATGCGGAAGTACACATCAAAAGAGTAAAATCAATACTTCCCAAGCATGGCAAGGTAGCTATAATGAGCATTACAGATAAACAGTTTGGAGATATTGAAATTTTCTTTGCGAGAGCTAAAGAGGAACCAAAACCAACCTATCAGCAATTAGAACTTTTTTAGGAATAGAAAAAGACTTTACATCAAACAAAAATAGAGAAGAAATAGTAAAAAATCTAATCCTATAAAAACGCAAAACCCATTGAAAAACAATGGGTTTATTTTTTGAG # Right flank : TATTACTGTTTGTTATTGGTTTTATTTTTTAAGATATAAAACACGCTTCCAATTATGTAAACCGACACAATTAAATTAGATACTAAATTAAAAATCCCTATACTCCCAAAATCCATTACAATGTAGTAGGAATTATAAATGATATAAAAAATAGAAAATACAATAAGTATAAAATATAGCATAGAGTTTTTCATTTTTATAAATTGCAAGCTGTTACAAAGATAAAAAAAGAGCTACCTCCAAGAGGTAGCTCTACGTTTTTAAATTGAGATATTCAGTCTACTTTAAAGTAATATTGTCTATTTGTACAGTAGTAGTTACAGTAGTGTTACCTGCATATTCAAAAAAGATATAACCTTTTCCTGTAGCAGGAATTGCAAATTCGCCACTATCTACCCAATCGGCAGCATAGCCATTAGTATTTTCTTTTGAAAGAGTAAACTTAGAAGTAATATCTATTAGGTCGGTTTTATTTACAACTCCGCCAGGTGTATATTTCG # 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 : GTTGCGAACTATCACAAAGATAGTAAAAATTGAAAGCAATTCACAAC # Alternate repeat : GTTGCGAATTATCACAAAGATAGTGAAAATTGAAAGCAATTCACAAC # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: F Score: 4.5/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:68.09%AT] # Reference repeat match prediction: R [matched GTTGTGAATTGCTTTCAATTTTTACTATCTTTGTGATAGTTCGCAAC with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-6.30,-6.70] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-4] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [73.3-78.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,4.87 Confidence: LOW] # Array family : II-C [Matched known repeat from this family], // Array 1 294839-293257 **** Predicted by CRISPRDetect 2.4 *** >NZ_QXQM01000002.1 Riemerella anatipestifer strain RCAD0179 Scaffold2, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ================================================================================== ================== 294838 36 91.7 30 .................G.....TG........... ACTAGTAAAATAATAACGATATGAGAAATT 294772 35 83.3 80 ...................-..CT....T..A...A CTCCGCTGAAAATATAACGAAGCGTGAGCTAAAATGAGAGCAGTCCCAACACAACAGCAATGCAAGAAAGTATAGGAAAT T [294747] 294656 35 83.3 79 .......G...........-..TT....T..A.... TCCGCTGAAACAACAACAAAGTCGTGAGTAAAATGAGAGCAGTCCCAACTTCGAGGGCGATTAGCTGGACTTAATCGGC G,C [294623,294632] 294540 35 83.3 79 ...................T.T.-..T.T..A.... TCCGCTGAAAATATAACGAAGCGTGAGCTAAAATGAGAGCAGTCCCAACACAACAGCAATGCAAGAAAGTATAGGAAAT G,CG [294506,294520] 294423 35 83.3 79 .......G...........-..TT....T..A.... TCCGCTGAAACAACAACAAAGTCGTGAGTAAAATGAGAGCAGTCCCAACTTCGAGGGCGATTAGCTGGACTTAATCGGC G,C [294390,294399] 294307 35 83.3 79 ...................T.T.-..T.T..A.... TCCGCTGAAAATATAACGAAGCTGTGAGTAAAATGAGAGTAGTCCCAACAGACCTAGCAGATGACGGTAAACTAAACGG G,CG [294273,294287] 294190 35 83.3 82 .......G...........-..TT....T..A.... TCCGCTGAAAACTTACAACAAAGCTGTGAGCTAAACTGAGAGCAGTCCCAACTTTCTGTGTTTTGTGCTGTAGCCTTAATAT G,C [294157,294166] 294071 35 83.3 81 .....T.............-..CT....T..A.... TCCGCTGAAACAACAACAAAGCTTGTGAGCTAAACTGAGAGCAGTCCCAACACTCACAACAACTTAAAATACCAAAATAAA G,C [294038,294047] 293953 36 97.2 30 ...................G................ TGTGCTTCCTACAACGAGTAGCGTTCCTTT 293887 36 97.2 30 ...................G................ TTAACTAAGTTACCTAGAAGTATAAATGAA 293821 36 100.0 30 .................................... TCTGCATCTACGAAGGTGATGAGGAAAAGG 293755 36 100.0 30 .................................... CAATAGGACCTATTATATTTACAACAACAG 293689 36 100.0 30 .................................... ATTTTGAAAATATAGAGGCGATAAGCCTTT 293623 36 100.0 30 .................................... TAAGAACTTTGTAGATGAAAGTGGTAATCT 293557 36 97.2 30 ...................C................ ATTCTAAAAGGTACAGAGAATGAAGCTAAA 293491 36 94.4 30 ...................C........A....... TCAACCAATTTAATCTGCAACTCTGAAATG 293425 36 97.2 30 ...................C................ TGATAGGAATATTTCTTATTCTATTTTTTA 293359 36 100.0 31 .................................... TCACAAACGGAAAAATATGTTTATTCCGTTG 293292 36 100.0 0 .................................... | ========== ====== ====== ====== ==================================== ================================================================================== ================== 19 36 92.5 50 GTTGTGAATACCCTTCAAAATGAGAGCAGTCCCAAC # Left flank : CATTAAAATAGATGGGGACAACCCTAAAAACGGTATTGTCTTTAAAAACTTAGACACTCAGCAAGAAGTGAAACTCTCAGCAGAGCATATTGTCCTTAATGAGCCGTCAAGGTTACTCATTCTCGTTCCTACAGATTTAGAAGCGGGTAACTATGAACTCAGCATCACCACGCAAAGCAGTAAAGGCACTACCTTACTGAAAGAACCCCGAACCGAAACACTAAGCACGCCTATTACTATTGTGTAGTGTGTTTTTGGCACTTCTAAATAAAGACCGCCCTTCCTTAATGCTAAGGAAGGGCGGTCGCTTTATAAGAGGAAGACACTTCACTGCCTAAGGCGAAGGCTCTTCTCTCGGTAAGGAGAAGAGCCTTCCCTCGTACGAGGGAACCGACTTCGCCTGTACTAAGGAAGTGAGGTATTTTCTGTAATAGAATAAATAGGAAGCAAAATCCCTGCTCTGTACCGTACAGAGCAGGGATTTTTTTATGCCCTTAGGT # Right flank : TTAGGAGCAAATAAGCTGTATTTATTGGTGTTGTGAATACCCTTCAAATGCTGTGCATTATTGTTATGATAGGGTATTGTCTTTTTTGGGTGCTTGTTTTATCTCGATGTTTCAAAGAACGCTTTTCTTTACAACGCTTTTAAATCGCGTTGTTCTATTTTTAGGCATTGCCTAATGCTTTGGCTCAACTTATGATGCAGCACCTTCATTCTGGTAGCCGCCTCTTCGTTTTTTAGTCGGAACTCCGCCTCGGTGCTGTTTTGCTCTGCAAGTAGGAGCTTATGAACGATACTACGGTACTCAAAAAACTTTTTGGTGACTTCCTCAGATAAGAAGAGCCCACAGCCCTCCCCATAAAATAGTTCTGGGAGCTCCCTTAGAAAGGCTTGGGCATTGGCTCGGTTAATATAATGAATTTTATCCTTTTGCCCTTTGGGAACTTCCCATTTTAAGAGGTTTTTGGGGTTGTCTTGGTCGGTCATATACGCCAGCAGACGGTA # Questionable array : NO Score: 4.02 # Score Detail : 1:0, 2:3, 3:0, 4:0.62, 5:0, 6:0.25, 7:-1.31, 8:1, 9:0.46, # 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: R [matched GTTGTGATTACCCTCCAAAATGAGAGCAGTTCCAAC with 92% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-5.30,0.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [4-60] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [65.0-55.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [1.05,4.5 Confidence: MEDIUM] # Array family : II-C [Matched known repeat from this family], //