Array 1 3012933-3014425 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP055292.1 Shigella sonnei strain SE6-1 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 3012933 29 100.0 32 ............................. GCATTGACGCTTTAAACGACGACGGACGCCAC 3012994 29 100.0 32 ............................. AAAACAGCCTTTAGATTAGTACCTGACGACCG 3013055 29 100.0 32 ............................. TAAACGCACCTGGCGCGCCACTTTATCAACAA 3013116 29 100.0 32 ............................. CGGCTTGTTTAATTGCGTGGAACGTCTCAATT 3013177 29 100.0 32 ............................. ACGGCGTGGATTGAGGGACGGGTATTTGGTCC 3013238 29 96.6 32 ............................T AGATCGCGCCACGAGGAAACGAATATGAACGG 3013299 29 100.0 32 ............................. TGCCGCCAGGCCAGCGACACATCAGACAACTG 3013360 29 100.0 32 ............................. GTCTGTGATGGCCTGCTCGTGAGTCCGCGGCG 3013421 29 100.0 32 ............................. TTTTGATTTCATTAACGGCGCTCCCCATATTT 3013482 29 100.0 32 ............................. TGCGCCGTAGCGTGTCCACCTATTGTAGTAAA 3013543 29 100.0 32 ............................. ATACAAACGCGGTGTTTATCAATATGAATTTT 3013604 29 100.0 32 ............................. GCACCACGCGTACCCCGATGTTTGTTTTGCCA 3013665 29 100.0 32 ............................. CTATTGCTTTCGTACAGATTTTCAGTGGTGCT 3013726 29 100.0 32 ............................. AAAATTCTGTGTTTCGACCATTACTTCGGTAA 3013787 29 100.0 32 ............................. ATTCTTGATCACGCTTTTACCGAAGTAATGGT 3013848 29 100.0 32 ............................. GGGGTAGAATTATTCTTCGTGAGCGATTTATC 3013909 29 100.0 32 ............................. CGGCGTTCCGTGCGGCAATTGGAATCACACCA 3013970 29 100.0 32 ............................. CGTTCTGAATCCGATATTCTTCAGCACCTTCA 3014031 29 100.0 32 ............................. GCTCCCTGTCAGTTGTAATCGATAACGTTGAT 3014092 29 100.0 32 ............................. ATGTAGGGGCAATCGAACGATTCTCTGCCGAC 3014153 29 100.0 32 ............................. CCTAGCCCGATTATCGGCATGAGCGATGCGGA 3014214 29 100.0 32 ............................. TCGAAGAAGAAAGGGAAATAATGCGAGGAACG 3014275 29 100.0 32 ............................. TATTACGCGCCAGCAATGCTGACAGCGGCAAA 3014336 29 100.0 32 ............................. CGCGAGAGCCAGCAAAACGCCAGGGCACAAAA 3014397 29 93.1 0 .A..........................A | ========== ====== ====== ====== ============================= ================================ ================== 25 29 99.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TGGATGAACTATTGGCAACGCTGACCGATGATAAACCGCGAGTCATTGCACTGCAGCCGATTAGCCAAAAGGATGATGCCACACGTTTGTGCATTGAAACCTGCATTGCGCGTAATTGGCGTTTGTCGATGCAAACACATAAATATCTAAATATTGCCTGATTAAACATTTATAAGCGTTATAAATGGGTGGAACCTGTAAAGACTTCTACTCATTTATATTGTTTGTCGCCTCTGAAAACTCCTCCATTTTACCCATCCAGGGCTAATCATTAGCATTCTCTACAAATTCTGTGGCATTAATTTTTCGCTGGAGTGAAAATTATTGCGGTAAAGTTTGGTAGATTTTAGTTTGTATAGAGTTATTTTAAATATTTACCTTTTTAATCAATGGATTAAGTACTCTTTAACATAATGGATGTGTTGTTTGTGTGATACTATAAAGTTGGTAGATTGTGACTGGCTTAAAAAATCATTAATTAATAATAGGTTATGTTTAGA # Right flank : ACCATATAACCCGTTATCTCTTTCTCAAGTTTTTATATTAGCAGTACTTGTAATAAGCAACATATCCACGTAACCCCTCATGTTCAAAATAGTTCTCCATGCCAGAGAAGTTCACAATTATCGATACAAAAAATTAAATTTAATCAAAGTGTTATTTGTATGATTCTTAAATCGTTAAGAAATTTTAATCTATTATTTTTTTAATGTTGAATTAATATCTATTAATTTTTTCTTTAGGTTAATAGTTTGTTTTTTAAGCTTGTTATTCATTGATTAAGTAATAAATCTGAAAATTTGTCTTTGTTTTGAGGCTAATGAGTGGTTTTACATTACCGTTTCTATACGCTGTTGATGAATAGTTCTTATGAATAAAGATATCCAGTTCATACTTTAAGTGAAAATTGATAAAGTGCGATTCGTATTGTCTTTTATTCTAAAGACATCGAGTGTAGTTAATATTCCTTGTAAAAACAGGGATAAACCGAACTAGTTAAAGTTTT # Questionable array : NO Score: 6.24 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 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: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [1-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [75.0-68.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 3029942-3030703 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP055292.1 Shigella sonnei strain SE6-1 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3029942 29 100.0 32 ............................. CGACAAAATTCTCAAAACTCGATCAGGAAAAT 3030003 29 100.0 32 ............................. CCACCGTTTTCGCCCACCAGGGCGCACAACCC 3030064 29 100.0 32 ............................. GAAAAAGAGAAGGTAGAGAAAGCGGAATCTGG 3030125 29 100.0 32 ............................. CAGGTCTATCGGGCGATCAATAAAATCGGTCA 3030186 29 100.0 32 ............................. GCGCACCGTTGCGTCGAAAAGGCGCTGGAGAT 3030247 29 100.0 32 ............................. TACGCTTACACAACGGGCGAATATTTTAACGG 3030308 29 100.0 32 ............................. GAACCCAATAGTGAAATACAGCATCATTTTTT 3030369 29 100.0 32 ............................. ACCTGGAGGCGAAAAAGGCGCTTCGACGTAAA 3030430 29 100.0 33 ............................. GAGGCCTATATCTCTAACCGCATCGGGCTGCGC 3030492 29 100.0 32 ............................. GGGCAAATATAAATTCCAGCGTGCTTCATGAA 3030553 29 100.0 32 ............................. GGGCAAATATAAATTCCAGCGTGCTTCATGAA 3030614 29 100.0 32 ............................. CTGCGTAGCGACCTTTGCTCTCAATTTCGTTG 3030675 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 13 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTCCTTGCTGCAGGTGAAATTGAACCACCACAACCCGCGCCGGATATGTTACCGCCTGCCATCCCTGAACCTGAAACGCTGGGTGATAGTGGTCACCGGGGGCGCGGCGGATGAGCATGGTCGTGGTTGTTACAGAAAATGTCCCTCCGCGCTTACGTGGACGGCTCGCAATCTGGCTACTGGAAGTGCGTGCCGGTGTGTATGTTGGTGATACATCAAAACGTATTCGGGAGATGATCTGGCAACAAATTACCCAACTGGCTGGTTGCGGAAATGTGGTGATGGCCTGGGCGACCAATACCGAATCGGGTTTTGAATTTCAGACCTGGGGAGAAAACAGACGTATTCCGGTGGATTTGGATGGGTTACGTTTGGTTTCTTTTCTTCCTGTTGATAATCAATAGGTTATGTGTTCTTTAAAAATAAGGAAATGTTTGAATTTAGTTGGTAGATTGTTGATGTGGAATAAATTTGTTTAAAAACAGATATGTATGCTTAGT # Right flank : GGGCGCACTGGATGCGATGATGGATATCACTTGGAGTTCCCCCGCCCCTGCGGTAGAACTCCCAGCTCCCATTTTCCAACCCATCAAGACGCCTTCGCCAACTCTTTCACCAGAGGTAGCATTATCCGCATAACGTCACGGCAGCGACGTTCTATTCTTCCAGGAAGTGCCTTATCAATATGCTGTTGATTATCAAACCTGACGTCATGCCAGCTATTTCCCGCAGGGAATGCGGCTGTTTTTGCGCGTTGCTGATAACCATCCTTATTCCCAAGATTCCAGTTAGTCGCTTCCACCGAAAGTACAGCAATGCCCGCTTTGTCGAATATTTCTGCGTCATTACAACACCCGGTGCCTTTCGGATAGTTTTTATTCAAACCAGGATTGGTCGTCGCGGCTATTCCCTGACTGCGCGCAATTGCCAGTGCCCTGTCGCGCGTTAATTTCCTTACTGCTTCAGGGGTTTTTACACCGCTGTTGAAATACAATTTATCGCCAAC # 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 : 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: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [73.3-40.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.51,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //