Array 1 15833-19523 **** Predicted by CRISPRDetect 2.4 *** >NZ_LDRE01000074.1 Rothia kristinae strain RSA5 contig_74, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================ ================================== ================== 15833 28 100.0 33 ............................ CACGTGCTCGGCTTTCAGGAGCCCGTTATCGTG 15894 28 100.0 33 ............................ GGTGTGGGAGTCCATCAGCACCGGCGGCGGCTC 15955 28 100.0 33 ............................ GGATCCCGCGTTCATGATCATCGTCAGCTGCCC 16016 28 100.0 33 ............................ GGGGAATGATGGGTGCATAGATCGGCGCCTCGT 16077 28 100.0 33 ............................ CGAGTCTCCGGCCTGCAATGCCAGTGACGTTGC 16138 28 100.0 33 ............................ GGGCAGCACCTCCGGGAACAGCTCGGCAGCCGC 16199 28 100.0 33 ............................ CCGGGCGCTCTCGTCCTTGTACGCAGTGAGGGT 16260 28 100.0 33 ............................ CCAAGATGCGCGGCGTCGTGGGCTATCTGCTCG 16321 28 100.0 33 ............................ GCGAAAAAGTGGATGGGGTGCTCGGAATCGATG 16382 28 100.0 33 ............................ CCATCAATGAACCATCAAGGGGAACCCCTACTG 16443 28 100.0 34 ............................ GAACCCCCGTGCGCCAAGCGCCGGGGGTTCGGTG 16505 28 100.0 33 ............................ GCATGACCGAGAAGAAGAGCGCAGCCGATGAGG 16566 28 100.0 34 ............................ CGGCCGACGATGCCGAGCCGGAGTCAGAGAACGT 16628 28 100.0 33 ............................ CTGGGTGTCGAGGCCGGTCGCATCGGACAGTGC 16689 28 100.0 33 ............................ GCTCATGGGATCCATTGTGCGCCTTTCTAGAGG 16750 28 100.0 33 ............................ GACCGCTCGGTCGCTCTCGGGCTCAAACTTCGA 16811 28 100.0 33 ............................ GTTTGGACGCGCTGCTGGAGCAGTGAGATGTCA 16872 28 100.0 33 ............................ CCGAGGACACCATGACCGCAATGCTCAACACTC 16933 28 100.0 33 ............................ GCGCCTCGGGGCAGCCCCTGGGAGAGCAGGTGT 16994 28 100.0 33 ............................ CACTAGCCCCTTTGCCTCCAGCTCTGCCTTGGT 17055 28 100.0 33 ............................ GGGCATCCTCCATAGGGCCTTGGTGGGTGAGCC 17116 28 100.0 33 ............................ CGAGACCGTTCGCGAGTACAAGGCCCAGGAGGA 17177 28 100.0 33 ............................ CCCGACGTGCGTGCCGTGGTTGCGGCACTTCGA 17238 28 100.0 33 ............................ CACCGGCCCCTCCTTCTCTGTGGCCCGCATGAA 17299 28 100.0 33 ............................ CGTCGGCGGAATCACCTGCACCAGGCCCTGGGC 17360 28 100.0 33 ............................ CTGGCGGAGGTGCCGGTAGTCGGCTCCGAACTG 17421 28 100.0 33 ............................ GGAAGCCGATGTGCCGTGGTGGCTCCGCGGGCA 17482 28 100.0 33 ............................ CCCGCGGAATCGTCGCGCTGTCCATCAGAACGG 17543 28 100.0 33 ............................ GTAGCCCCAAAGTAGCCCCGGCCGGGTTGGGGA 17604 28 100.0 33 ............................ GGGCACCAGCTTCGGCCTCAACGAAGCCGCCAC 17665 28 100.0 33 ............................ GGTCTCCACGAAACAGGAAAACGCTACCAAGGA 17726 28 100.0 33 ............................ CCCATTTGAGGAATGCGTGGATCATGTCGAATG 17787 28 100.0 33 ............................ CGGGGTTCTTGTCGGTCTCTGCTGAGGCGGACG 17848 28 100.0 33 ............................ CTCGGCGGCCTGCAGCAAGTCAATCAGGCTGAG 17909 28 100.0 33 ............................ GGAGAGTCGCATGACCCCGATGACCGACGCGGA 17970 28 100.0 33 ............................ GAGGGCCCGCACTATTAGTGCGGGCCCTCTCGA 18031 28 100.0 33 ............................ CCCACCCGTTGTTCTTCAGGGTCTCGATCAGCT 18092 28 100.0 33 ............................ CCGTGCAAGCTTTTGGGGGTGGGAGCAAATGGG 18153 28 100.0 33 ............................ GTGATGGCCGAGACCACCGGACACGCCTACACC 18214 28 100.0 33 ............................ CTCAGCTGCCACCGGCGGAAGAAATCCGCCAGC 18275 28 100.0 33 ............................ CCCCGCCCGCCGAGGACTTCACCCTCGCCGACA 18336 28 100.0 33 ............................ GGTCCGCAGATCCGCGAGCGCATCCGTCCACGC 18397 28 100.0 33 ............................ CCGACAGGCCGGCAAGAACGACATCCCCGTCGC 18458 28 100.0 33 ............................ GAGTTGGGGCGCGGCGCACGGAGGGCGGTAATG 18519 28 100.0 33 ............................ GAAGGCCCCGCCCCTCACGATGGAGGGGCGGGG 18580 28 100.0 33 ............................ GCACATCGTGCAGGCGATCAACGCCCACCAGGG 18641 28 100.0 33 ............................ GCGTGTGAAGGCCGCTTACCTGGCGCTGCGCGG 18702 28 100.0 33 ............................ CTTCTCGGTGAGGCTGCCGAGCAGCCCCTCGAG 18763 28 100.0 33 ............................ GCGCTGGCTCGACAAGCGCGGCCACGAGTACAC 18824 28 100.0 33 ............................ GGTGCCGGTGAGCCCGCGGATGTCCAGGGCCTG 18885 28 100.0 33 ............................ GACGGGCAGATCGTGTTCGCGGACACTGACGGC 18946 28 100.0 33 ............................ GTGAGCGAGCACCTGGAGAAGACCGAACAGGAC 19007 28 100.0 33 ............................ CCCAGAGGCGTTGCGTTCGAACCGCCCCATGAA 19068 28 100.0 33 ............................ CAGGAGACGCGCCGGGGCCGCCGGGCGACGCTC 19129 28 100.0 33 ............................ GTTGTACGTCCCGACCTTGGGGGTCTTGTTCAC 19190 28 100.0 33 ............................ CTTGGCCTTGAACTTCTCGGTGAGGCTGCCGAG 19251 28 100.0 33 ............................ GCTGATCACCCTCGAGACCACCATCGCCGAGCA 19312 28 100.0 33 ............................ GAAGGATGTCCCCTCGAATCAGCTCAGCATGGT 19373 28 100.0 33 ............................ GTACATGCGCCCGGTCTGAGAGGCCCGCGCTTG 19434 28 100.0 34 ............................ CTACGGGTGCGGGATGCTCACGCTCCACGAGGAC 19496 28 100.0 0 ............................ | ========== ====== ====== ====== ============================ ================================== ================== 61 28 100.0 33 GCCCTCCCCGCGCATGCGGGGATGAGCC # Left flank : CACGGGAGAGGACGGCGTCGAACCGGGAAGGAACTATGCCTTCGAGGACGAGGACTCCGCGTCATGATGGTCCTCGTGCTCACCGCCTGCCCAGCAGGTCTTCGCGGCGACCTGACCAAGTGGCTCTTGGAGGTTAGCCCGGGGACATTCGTCGGCAATGTCTCCACCCGGGTCCGTGAGAAGCTCTGGGACCGAACGAAGGAGCTGTGCCGAGACGGGAGAGCACTGCTGGTATATACATCGGATGGCGAGCAGCGCATGCGCTTCGAGACTCACCGACACGACTGGGAACCCGTGGATATGGAGGGCCTGACGCTGGTCAGACGGCCCTTGCCGAGCAGCCGATCCGCCGAGAAGAATCCCCGGCGTACCGGTTGGAGCCAGGCATCCGCAGCCGCCCGCAGCCGACGCCCCTCCTGGAGACGATCGCGCTGATGCGGCACTCCGTTAAACTGAATCTGAACCGGCCGACTTCCTGACGTATCCCCAAGTCAGGAAGA # Right flank : GGTGTTGTAGCGGCTTGCAAGCAAGCTGGCAAGGCCCTCCCCGCGCATGCG # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 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 : GCCCTCCCCGCGCATGCGGGGATGAGCC # 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 [3,3] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGCTCCCCGCGCGTGCGGGGATGAGCC with 96% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-12.70,-12.10] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [48.3-28.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.14,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 1007-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_LDRE01000153.1 Rothia kristinae strain RSA5 contig_153, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================ ================================== ================== 1006 28 96.4 33 ..T......................... GATGGGCCGCAGGGCGTCGGTGGGGTCGAACTT A [1002] 944 28 100.0 33 ............................ CGGACGAACGGCGGGCTTCCGGCAAGCGTTCCG 883 28 100.0 33 ............................ GAAGACCACCGTGTACATGCCCCTCACGCTGCA 822 28 100.0 33 ............................ CATGAGGGCGTCCTGTACAAAAGTCATGAAAAC 761 28 100.0 33 ............................ CACGCGCCGCGACCTGCGGGCCGTGTTCGGCTA 700 28 100.0 33 ............................ GCAGGCGCTGGCGCGTGTCGGGTTGCCGACCTC 639 28 100.0 33 ............................ CACCACGTGAGCGACGGCCAGAGAACCCCCTCG 578 28 100.0 33 ............................ CTGTTCCATGGACTCCCCCAGCTCGATGCGCAG 517 28 100.0 33 ............................ CCCGGCGGCGGGGGTGTCGTCGGGGAGGGTGAA 456 28 100.0 34 ............................ GCTGCCCCAGCGCAAGCTGTTCCGCCGCCGCTTC 394 28 100.0 33 ............................ GACCGTCCGCTCCGCAACTTGACGGACCCTGCC 333 28 100.0 33 ............................ GCGCAGATGCGGCTGCACTTCCCAGGACCACTC 272 28 100.0 33 ............................ GCCCTTCGTGGACGCCGCGAGGGTCAGGTACGC 211 28 100.0 33 ............................ GCAACGAGCGTCGGCGGGAAGGTCGGGGAGGAA 150 28 100.0 33 ............................ CGCGGCTGGGGATGTGCGGCTGGGGAAGAACCT 89 28 100.0 33 ............................ CGAGCGGCGGCTGAAAACGTCGAGAATGTTCAC 28 28 100.0 0 ............................ | ========== ====== ====== ====== ============================ ================================== ================== 17 28 99.8 33 GCCCTCCCCGCGCATGCGGGGATGAGCC # Left flank : GAGGTGTGTATACGAGACAGTCTTGG # Right flank : C # 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 : GCCCTCCCCGCGCATGCGGGGATGAGCC # 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 [3,3] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGCTCCCCGCGCGTGCGGGGATGAGCC with 96% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.10,-12.70] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [0.0-21.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.41,5.14 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 750-51 **** Predicted by CRISPRDetect 2.4 *** >NZ_LDRE01000175.1 Rothia kristinae strain RSA5 contig_175, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================ ================================= ================== 749 28 100.0 33 ............................ CTGGCAGAAGCTCTACGCCGATGCCCACGCAGG 688 28 100.0 33 ............................ GTTCTGAAGGGGAGCGATGGAGAAGGTGTGGGA 627 28 100.0 33 ............................ CAAGCTCCTCGCGGGAGGGGATTCCGCGAAGGA 566 28 100.0 33 ............................ GCCATCCGCGGACGCGTCCACCAGGGTCCGGTC 505 28 100.0 33 ............................ GACGAGCGCAACACCCCCTAAAACCTCCACAGA 444 28 100.0 33 ............................ GCGTCCCACCCGTCGTACCCGAGGGGTACCCAG 383 28 100.0 33 ............................ GAACACACCGAATTGTTCGAGGGGATCGAATTC 322 28 100.0 33 ............................ GGGTCCCGGCTTGCGAGGACCGCGCCTCTTCGA 261 28 100.0 33 ............................ GAAGCACGCAAAAGATGGAACGCTGTGGAGCGG 200 28 100.0 33 ............................ GAGCTGTGCCGCTGCGTCTGCCGCCTGAGGCCG 139 28 100.0 33 ............................ GGTGTAGTGCCCGGTGACGGCCGGCTCCGGGTC 78 28 100.0 0 ............................ | ========== ====== ====== ====== ============================ ================================= ================== 12 28 100.0 33 GCCCTCCCCGCGCATGCGGGGATGAGCC # Left flank : GCATGCGGGGATGAGCCGCGGGGGCGGTCGGGTCATCCGGGTCCCCCGG # Right flank : CGACGATCGCACCACCCCCTAGAACCTACACCTGCATCTTATACACCTCTC # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 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 : GCCCTCCCCGCGCATGCGGGGATGAGCC # 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 [3,3] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGCTCCCCGCGCGTGCGGGGATGAGCC with 96% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.10,-12.70] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [38.3-18.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.68,4.87 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //