Array 1 128480-126761 **** Predicted by CRISPRDetect 2.4 *** >NZ_QXHU01000005.1 Riemerella anatipestifer strain CCUG25054 Scaffold5, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================================== ============================== ================== 128479 46 95.7 30 ..................TT.......................... GAATATGGGTGTAGGATTAACGAGCTTTTT T [128457] 128402 46 100.0 30 .............................................. AGGTATTTATATCTGTCTTTTTTTTGTTTA 128326 46 100.0 30 .............................................. GTTACCAATATTCCCTGTAAGATTCATTTT 128250 46 100.0 30 .............................................. AATTTACACACTGATTTTCCATAATATTGT 128174 46 100.0 30 .............................................. AAGCTATAAAAACAATTCACTCTCTTTGTT 128098 46 100.0 30 .............................................. CCTTGCCTATACCTTCGCACCTTGTGGGCT 128022 46 100.0 30 .............................................. GATAAAACAATTTGAAAAAATAGAAAATAA 127946 46 100.0 30 .............................................. CTCCAGATAAATTGCTTCTTTCTCTTTGGT 127870 46 100.0 30 .............................................. TCCATAAATCAAGTTCTGGAAAATGAACGG 127794 46 100.0 30 .............................................. CGAAATGTTATAGTTATGAAAAATCTTAAA 127718 46 100.0 30 .............................................. AAAGATACTTTGTCATTGAAAAATCGTGTG 127642 46 100.0 30 .............................................. TCTTTTTGATTACTCTTCCTCATTTTATAA 127566 46 100.0 30 .............................................. TTTGAATCCCATCTTTTCAGTTGGGCGAAA 127490 46 100.0 30 .............................................. AGGAACAATAGCGTTAGAAATCGCTTTGAT 127414 46 100.0 30 .............................................. TAGTGATGATTTGTTAAAAAATGACGGTTC 127338 46 100.0 30 .............................................. CCGATTTAGCGAAATAACTCCGAAGCAACT 127262 46 100.0 30 .............................................. TTAACGCCTGAACTTCGGAAGCGGAACACT 127186 46 100.0 30 .............................................. AATTACAATCTTTTCCTTCAAAATTTTTAA 127110 46 100.0 30 .............................................. AGAAGACATTTTGTCCTCCGTAGGGCTTTC 127034 46 100.0 30 .............................................. TTTCTTAGAAAAATGGTCTGATGTTTTCCA 126958 46 100.0 30 .............................................. GTTGGCTGGAATGAGATATAAACAATGAAT 126882 46 100.0 30 .............................................. AATAGTAAGGTTTACCATTAAAATCACTTT 126806 46 100.0 0 .............................................. | ========== ====== ====== ====== ============================================== ============================== ================== 23 46 99.8 30 GTTGTGAATTGCTTTCAAAATTACTATCTTTGTGATAGTTCGCAAC # Left flank : TGTAAATCTTTTTTTTATTTCTTTTTTTGCTTATGTTGTTTTTTTTTCTAACTCTAGAGTTGTATCTTCGTTTCGACATAACACTTACAAAGCTAAGTATAAATTTATTATAATTTACTGTTGTACATTTTAATTTTAGAAATACTAACTTTAAATTATTGATATTGCGATTGAAATATTCTTTATTGATGAATAGCACAATAGTTAAAAAGTGGTTATTTTAGCCTTTGAAATTCTCAAATGTCTTAGTATAATTTCTTCTAATTAAACTGGTCATAGAGTTGCGAGATGAAGGGAAACTTCTTCTACTGTTCCTTAGATAAATGAAATTGAGGCTTGTAATGCTTTGGGTTTAGTCTTTCAGGTGCTTCTAGTGCTATCCTTGTGTAATTGAACAAATCTATTTGGATTTCTGGGGATAAACCTTTGTCGCCAAGAGTGGTGCAATCGGATAACTGCCTCTAGATATCTTTTAACTTCGGATAAACTTATTGCTTTTA # Right flank : CTCAAAAAATAAACCCGTTGTTTTTCAATGGGTTTTGCTTTTTATTAGGATTAGATTTTTCACTATTTCTTGTCTATTTTTACTTTAGTAAATCCTTTTTTTCTGTTTCTAAAAAAGTTCTAATTGCTGATAGGTTGGTTTGGGTTCTTCTTTAGCTCTCGCAAAGAAAATTTCTATATCTCCAAACTGTTTATCTGTAATACTCATGATAGCCACCTTACCGTGTTTGGGAAGTATTGATTTTACTCTTTTGATGTGTACTTCTGCATTTTCACGACTTGGACAATGCCTTATGTAAATGGAAAATTGGAAAAGGCTAAAGCCATCGTCCTCCAAGCGTTTTCTAAAAAGTTGAGCTGCTTTCCGCATCGCTTTAGTTTCTGTTGGTAAATCATATAGCACCATAACCCACATAACTCTATAAGCATTAAAACGATTAAACTTCATAAAACTCAGGTACAGCTATTTGTCTTTTTTCTCCGGTATAACATTTATAAACA # 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 : GTTGTGAATTGCTTTCAAAATTACTATCTTTGTGATAGTTCGCAAC # 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:67.39%AT] # Reference repeat match prediction: R [matched GTTGTGAATTGCTTTCAATTTTTACTATCTTTGTGATAGTTCGCAAC with 94% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-5.40,-5.70] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [73.3-65.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.41,4.87 Confidence: HIGH] # Array family : II-C [Matched known repeat from this family], // Array 1 11633-14140 **** Predicted by CRISPRDetect 2.4 *** >NZ_QXHU01000009.1 Riemerella anatipestifer strain CCUG25054 Scaffold9, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ==================================================================================================================================================== ================== 11633 36 91.7 30 ...........T.....G.A................ AGTTACCAGCCTTTGTTTATCCGCAAAAAA 11699 35 80.6 15 ...........T.........T.-C...T.A.G... TCCGCTGAAAGCAAC T,A [11718,11730] Deletion [11749] 11751 36 50.0 30 AACAAAGTCGTGAGCT...A......T......... GATAGGGTAATAATAAACCCTAGTAGAGCA 11817 36 97.2 30 ...................A................ AATTGGATTTTAATTTGTGGTCGTATGGTT 11883 36 100.0 29 .................................... AGGTGTATAGGGCTTAAGCTGAAGAAAAA 11948 36 100.0 30 .................................... CTGCAAAAGTTTTAAACATTGGTGAAAATG 12014 36 100.0 148 .................................... TCTTCTTTAAGAAGACTGCAAATAAACTCTGTTGTGAATACCCTTCAAATGCTATGCATTCACGAACTCCGCTGAAAACAACAACGAAGCCGTGAGCTAAACTGAGAGCAGTCCCAACAAACCTTGCTTATGGGCTTTGGTAAATCCA 12198 36 72.2 82 ...................TGTTAC...T..A.G.A CTCTGCTGAAAACTACAACAAAGCTGTGAGTTAAACTGAGAGCAGTCCCAACAAACCCAAGAGAAGGAATCAACCTAAGAAA 12316 36 75.0 81 ...................TGCT.T...T..A.G.G CTCCGCTGAAAATACAACAAAGCAGTGAGCTAAAATGAGAGCAGTCCCAACCGAAAATGCGGTATTAAAAGAAGTACAACA 12433 36 72.2 80 ...................TGCTAT...T..A.G.A CTCCGCTGAAAACACAACAAAGCGTGAGCTAAACTGAGAGCAGTCTCAACTAATGGAAAACTACGGTAGAAATGGAAAGC 12549 36 72.2 82 ...................TGCTAT...T..A.G.A CTCCGCTGAAAACAACAACGAAGCTCGTGAGTAAAATGAGAGCAGTCCCAACGAGGAACAAATAAAGGAAAATATCTACTCA 12667 36 75.0 80 ....................CTTA.A..T..A.G.A CTCCGCTGAAACTATCAACAAAGCGGTGAGTAAACTGAGAGCAGTCCCAACATGAAACGCAAATAATCTATTCTATTCCT T [12686] 12784 36 63.9 11 A....T...C.........TGTTAC...T..A.G.A CTCTGCTGAAA Deletion [12831] 12831 36 66.7 30 AC.ACA.CG.AG..GT...A................ AAACGCTTTACAAAAAATAAACACAAGGGA TGAG [12846] 12901 36 94.4 30 .................G.A................ AGCCAATTTTTGCAGTTTATGGAGAAAATG 12967 35 83.3 13 ...........T.........T.-C...T...G... TCCGCTGAAAACA T,A [12986,12999] Deletion [13015] 13017 36 61.1 30 ACAAC...GC.TGAGT...C....G........... ACCGAAAAACTATTCCTCTATGGCTTTATG G [13028] 13084 36 94.4 30 .................G.A................ GGCATAATGGTACTTGGCATAATGGTATTT 13150 35 83.3 12 .........C...........T.-C...T...G... TCCGCTGAAACT T,A [13169,13182] Deletion [13197] 13199 36 61.1 30 ACAAC...CGTGAGCT...C................ TGCCGTGAGTATATGAAAAAATATCCTTCT G [13207] 13266 36 94.4 30 ...................AA............... CAAACATTTTCTGGAGATATATTCAAAGGT 13332 36 88.9 30 ...................AA....A.G........ GGTATCTGGACAAACTACCTGACTAAATTA 13398 35 83.3 80 ................-..A..CT....T...G... TCCGCTGAAACTACAACAAAGCTGTGAGCTAAACTGAGAGCAGTCCCAACCGAGGCAAAAGGAATGTTTACTGCGGAAAG T,A [13423,13430] 13515 35 88.9 80 .....................T.-....T...G... TCCGCTGAAACTACAACAAAGCCGTGAGCTAAAATGAGAGCAGTCCCAACAGCTGAACCTTTCAGATTTACAAAATTTTA T,C,A [13534,13536,13548] 13633 35 80.6 82 .....................T.-C...T..A.G.A CTCCGCTGAAAACTATAACAAAGCCCGTGAGTAAACTGAGAGCAGTCCCAACATTTGCAATTCTACACGATACTGAAAAACA T [13652] 13751 35 83.3 81 .......G.............T.-T...T...G... TCTGCTGAAAACGACAACAAAGTTGTGAGCTAAACTGAGAGCAGTCCCAACGGAATGGTACGAAGTACGTGCATGGTCTCG T,A [13770,13783] 13869 35 86.1 80 .....................T.-T...T...G... TCCGCTGAAAACAACAACAAAGCCGTGAGTAAACTGAGAGCAGTCCCAACTGCTAAAAGAAATTAACGATTTCAAAATTT T,A [13888,13901] 13986 35 80.6 81 ...................-..CT....T..A.G.A CTCCATTGAAAATAACAACAAAGCTGTGAGTAAAATGAGAGCAGTCCCAACTATTATTCCCAACAATTAAAAATACCTAAA T [14011] 14103 35 88.9 0 .....................T.-....T...G... | T,C,A [14122,14124,14136] ========== ====== ====== ====== ==================================== ==================================================================================================================================================== ================== 29 36 81.7 52 GTTGTGAATACCCTTCAAAGTGAGAGCAGTCCCAAC # Left flank : TTAAAATAGACGGCGATAATCCTAAAAATGGTATCGTCTTTAAAAACTTAGACACCCAAAATGAGGTAAAGCTCTCAGCAGAGCATATTGTCCTTAACGAGCCGTCAAGGGTGCTTATTCTTGTGCCTACAGATTTAGAGGTGGGTAACTATGAACTCAGCATCACCACGCAAAGCAGTAAAGGCACTACCTTACTGAAAGAACCTCGCACCGAAACACTAAGCACGCCTATTACTATTGTGTAGTGTGTTTTTGGCACTTCTAAATAGCGACCGCCCTTCCTTAGAGATAAGGAAGGGCGGTCGCTTTATAAGAGGAAGCTACTTCACTGCCTAAGGCGAAGGCTCTTCTCCTTACCGAGAGAAGAGCCTTCCCTCGTACGAGGGAACCGACTTCGTCTGTACTAAGGAAGTGAGGTGCTTTTCTGTAATAGAATAAATAGAAAGCAAAAATCCCTGCTCTGTACCATACAGAGCAGGGATTTTTTTATGCCCTTAGGT # Right flank : CTCCATTGAAAATACAACAAAGCCGTGAGTTAAAATGAGAGCAGTCCCAACAATGAAAAACTAGACACTTTTATTAAAAAAGTTGTGAATACCCTTCAAATGCTATGCATTATCGTTATGATAGGGTATTGTCTTTTTTTGGGTGCTTGTTTTATCTCGGTGTTTCAAAGAACGCTTTTCTCTACAACGCTTTTAAATCGCGTTGTTCTATTTTTAGGCATTGCCTAATGCTTTGGCTCAACATCTGATGCAGCTCCTTCATTCTGGTAGCCGCCTCTTCGTTTTTTAGTCGGAACTCCGCCTCGGTGCTGTTTTGTTCTGCAAGTAGGAGCTTATAAACGATACTACGGTACTCAAAAAACTTTTTGGTGACTTCCTCAGATAAGAAGAGCCCACAGCCCTCCCCATAAAATAGTTCTGGGAGCTCCTTTAGAAAGGCTTGGGCATTGGCTCGGTTAATATAATGAATTTTATCCTTTTGCCCTTTGGGAACTTCCCAT # Questionable array : NO Score: 2.77 # Score Detail : 1:0, 2:3, 3:0, 4:0.02, 5:0, 6:0.25, 7:-1.71, 8:1, 9:0.21, # 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 : GTTGTGAATACCCTTCAAAGTGAGAGCAGTCCCAAC # 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: F [8,3] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTTGTGATTACCCTCCAAAATGAGAGCAGTTCCAAC with 91% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [15-30] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [56.7-65.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.28,0 Confidence: HIGH] # Array family : II-C [Matched known repeat from this family], //