Array 1 43816-44271 **** Predicted by CRISPRDetect 2.4 *** >NZ_RXYV01000091.1 Shigella sonnei strain AP184 GCID_CRU_0003_NODE_16.ctg_1, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 43816 29 100.0 32 ............................. TTGATTACCTCGCTGTTGCTGCGCTACTGGTG 43877 29 100.0 32 ............................. GCGTTTCCATGCCGTTGATAAACATCCCGCCC 43938 29 100.0 32 ............................. GGTTGCCATCGCTGACGCAACGTCATTAAGGC 43999 29 100.0 32 ............................. CGCTTTTGCTCAGTAGTGAGTGTGATTTCATC 44060 29 100.0 32 ............................. CAGGTACAGCCGTTTCGGTGTTTTGTTTTTGT 44121 29 100.0 32 ............................. GCGTCGCTGGAAGAACAAAACCGCCTGATCGA 44182 29 100.0 32 ............................. GCACCACGCGTACCCCGATGTTTGTTTTGCCA 44243 29 96.6 0 ............................A | ========== ====== ====== ====== ============================= ================================ ================== 8 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 [0-1] 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 59771-60472 **** Predicted by CRISPRDetect 2.4 *** >NZ_RXYV01000091.1 Shigella sonnei strain AP184 GCID_CRU_0003_NODE_16.ctg_1, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================== ================== 59771 29 100.0 32 ............................. GCATTCAATATTCGGTTTTTAACTGCGGATTC 59832 29 100.0 32 ............................. AACCCGCGCCGTCGGCTATAACATCTCTGAAA 59893 29 100.0 32 ............................. ATTTTTGCGGTATTCTCCCAGCCGCCCAGCAG 59954 29 100.0 32 ............................. ACGACCAAATGATCTACGCGTATTGCCACCTC 60015 29 100.0 32 ............................. CCCCGCACACGTAAAGGCGTCGGCATGGATGC 60076 29 96.6 32 ............................C CCAGCGCCAGACGGGAACACAATTTTAAAGCC 60137 29 100.0 32 ............................. TTGTCGGGGATCTGTTCAAACTGACTCATTAG 60198 29 100.0 34 ............................. GGGGCGCATTAACAGAGAGAAAAACGCATAGGCC 60261 29 100.0 32 ............................. CAGCTCGCAGCGCTCGGAACGTGGCGCTATAG 60322 29 100.0 32 ............................. TCGCTATTGCCGGTAGTGTCGCTGATAGACTC 60383 29 100.0 32 ............................. CGGCTATGGAATTTATGGAGAAGTTTGGTTTT 60444 29 96.6 0 ............T................ | ========== ====== ====== ====== ============================= ================================== ================== 12 29 99.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTCCTTGCCGCAGGTGAAATTGAACCGCCACAACCTGCGCCGGATATGTTACCGCCAGCCATCCCCGAACCTGAAACGTTGGGCGATAGCGGTCATCGAGGACGCGGCTGATGAGCATGGTCGTGGTTGTTACAGAAAATGTCCCGCCGCGCTTACGTGGACGGCTCGCAATCTGGCTACTGGAAGTGCGTGCCGGTGTGTATGTTGGTGATACATCAAAACGTATTCGGGAGATGATCTGGCAGCAAATTACCCAACTGGCTGGTTGCGGAAATGTGGTGATGGCCTGGGCGACCAATACCGAGTCGGGTTTTGAATTTCAGACCTGGGGAGAAAACAGACGTATTCCGGTGGATTTGGATGGGTTACGTTTGGTTTCTTTTCTTCCTGTTGATAATCAATAAGTTATCCGTTCTTTAAAAATAAGGAAATGTTTTAATTTAGTTGGTAGATTGTTGATGCGGAATAAATTTGTTTAAAAACAGTTATGTATGCTTAGT # Right flank : GGGCGCACTGGATGCGATGATGGATATCACTTAGAATTCCCCGCCCTTGCGGTAGAACTCCCAGCTCCCATTTTCAAACCCATCAAGACGCCTTCGCCAGCTCCTTCACCAGCGGTAGCATTATCCGCATAACATCACGGCAGCGACGTTCTATTCTTCCAGGAAGTGCCTTATCAATATGTTGTTGATTATCCAGTCTTACGTCATGCCAGCTATTTCCCGCCGGGAAGGCAGGTGTTTTTGCGCGTTGCTGATAACCATCCTTATTCCCAAGATTCCAGTTAGTCGCTTCCACCGAAAGTACAGCAATGCCCGCTTTGTCGAATATTTCTGCGTCATTACAACACCCAGTGCCTTTCGGATAATTTTTATTCAAACCCGGATTGGTCGTTGCGGCAATTCCATGACTACGCGCAATTGCCAGCGCCCTGTCGCGCGTTAATTTCCTTACTGCTTCAGGGGTTTTTACACCGCTGTTGAAATACAATTTATCGCCAACA # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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 [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [71.7-45.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.92,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 10634-11443 **** Predicted by CRISPRDetect 2.4 *** >NZ_RXYV01000067.1 Shigella sonnei strain AP184 GCID_CRU_0003_NODE_22.ctg_1, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================ ================================ ================== 10634 28 100.0 32 ............................ ACATCATGAACGCGCAGCAATATGCCGCAATT 10694 28 100.0 32 ............................ CGGCAGAAAAACCGGTCGCGCTAATGGAGAAA 10754 28 100.0 32 ............................ GCCGCAACTCACAATAACAGAATCACAAATTA 10814 28 100.0 32 ............................ TGCCAGATATTTCAGATCATGAACGGTTGCGC 10874 28 100.0 32 ............................ AGGAAATTTCCGGCGACTAACGAAACAGGTTG 10934 28 100.0 32 ............................ GTCATCGGTATCGTCACGCGCAAGGGATTCAA 10994 28 96.4 32 ........T................... GTTGTAATTTTCGTACCCGGCGCGATCGCAAT 11054 28 100.0 32 ............................ AATCGTAGGGCACACCCTTACGGCAGTTAAAA 11114 28 96.4 32 ......................C..... TCATTGGAATACATGAGTTGCGCCCATTTTGT 11174 28 100.0 32 ............................ TGGCATGCAATCACTACAGCTATTAATTTCTA 11234 28 96.4 32 .................T.......... TGAACGCGATCCGGGCGATTCGGGAGTTTTCG 11294 28 100.0 32 ............................ TTCACCGAGTGGGTGCTCGTGCTGAATGAACT 11354 28 92.9 32 ..................C.T....... CACATATACGCGAACGTCATTTTGCAGTAGCA 11414 28 85.7 0 ....................A...C.CT | T,C [11434,11438] ========== ====== ====== ====== ============================ ================================ ================== 14 28 97.7 32 GTTCACTGCCGTACAGGCAGCTTAGAAA # Left flank : AAATTCATCGTCGAGTTGCAGGTTCAGCTGGATCAGAAAGGTGTTTCTCTGGAAGTGAGCCAGGAAGCGCGTAACTGGCTGGCCGAGAAAGGTTACGACCGGGCAATGGGCGCTCGTCCGATGGCGCGTGTCATCCAGGACAACCTGAAAAAACCGCTCGCCAACGAACTGCTGTTTGGTTCGCTGGTGGACGGCGGTCAGGTGACGGTTGCGCTGGATAAAGAGAAAAATGAGCTGACTTACGGATTCCAGAGTGCACAAAAGCACAAGGCGGAAGCAGCGCATTAATCTGATTGTTAGGTAGGTTGGTCAAGTCCGTAATCTCGAAAGAGGTTACGGACTTTTTGTTTATGGGGTGGAGGAGGTTCAGACCCTTTTTTTAATGATGATGGTAAGTTGTTGATAATTAGTGCTGCGGGAAGGTAAGGATAAAAAAGGGTGCTGCAGGAGAATGGGATGGTTTTGCTTTATTAACAACGGGCTAAACGTGTAGTATTTGA # Right flank : TACGATAGTGTTAGGCATTTGGTCATGCCATGACACTCTCAACTTCAAACCATTAGCTTCAGCACACAATAACAATCGTAATAATTGCGACAGAAATCAATTTTCAGCACATAAATCAATGCTGTACTAAGCCCAATACCTTCAAATATAAAATAATCACAGGATGTGTTTATGTCTTCGAATTACCTTACGCCTTCCGATCTCAAAACCATTCTCCACTCCAAACGCGCCAATATTTATTATCTGGAAAAATGCCGGGTTCAGGTGAATGGTGGGCGGGTGGAGTATGTCACCAGCGAAGGTAAGGAGTCGTACTACTGGAATATCCCCATTGCGAATACCACGGCATTGATGTTGGGGATGGGAACATCCGTTACCCAGGCGGCGATGCGTGAATTTGCCCATGCCGGGGTGATGGTGGGCTTTTGTGGTACGGATGGTACGCCGCTGTATTCAGCGAATGAAGTGGATGTCGATGTCTCCTGGCTCAGCCCACAAAG # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 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 : GTTCACTGCCGTACAGGCAGCTTAGAAA # 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 [8,6] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTTCACTGCCGTACAGGCAGCTTAGAAA with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-8.00,-7.70] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-10] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [58.3-58.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0 Confidence: HIGH] # Array family : I-F [Matched known repeat from this family], // Array 2 20505-21552 **** Predicted by CRISPRDetect 2.4 *** >NZ_RXYV01000067.1 Shigella sonnei strain AP184 GCID_CRU_0003_NODE_22.ctg_1, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================ ================================ ================== 20505 28 100.0 32 ............................ AGTAATTCCCCAATAATTCCCCGCGCAAAAAA 20565 28 100.0 32 ............................ GTATTGCCTGACTATTTCACGCAACAGATCGC 20625 28 100.0 32 ............................ TCTAATATTTCAAAACCCCAACGACTGCCAAT 20685 28 100.0 32 ............................ ACAGGCACCCGGCTGATGTTCGTAGGCGACAT 20745 28 100.0 32 ............................ TGGTGGCCGGAAGAAGCTGATCACATCATGTT 20805 28 100.0 32 ............................ CACATTATGAATCACACGATGGCGATGCGTGA 20865 28 100.0 32 ............................ ATCACATTTAATTCCGTGTTTCGTTTTGAACA 20925 28 100.0 32 ............................ GAACTCCCTTTCGTGGGCGGTACGTAATGATG 20985 28 100.0 32 ............................ GGAAAGTTAAGCGCCAGCGCGGCGTTGTGGGG 21045 28 100.0 32 ............................ GGAATCGCCCCTCGCTCTCAATCCAGAATTTT 21105 28 100.0 32 ............................ AGTCCGCGCGATTTCATTGATTAACCGGAACC 21165 28 100.0 32 ............................ TACTTGTGCTGAAGCACTGGCATCCAGAATGC 21225 28 100.0 32 ............................ AGTACGCTATTACGCTACCCTACCCAAAACAC 21285 28 100.0 32 ............................ ATGTTTATTCCCTGATTAATGACGCCGTGTTA 21345 28 100.0 32 ............................ ACATCGTTTACTCCGTTCGCCGCGTTAATGCG 21405 28 100.0 32 ............................ ACATTGATCAGGTTATTTCAAATACGCCCGGC 21465 28 96.4 32 ..........................G. AGCAAGCTGTCTCGCCCCTTCGGGCTTCCAGC 21525 28 85.7 0 ..G.................T..TC... | ========== ====== ====== ====== ============================ ================================ ================== 18 28 99.0 32 GTTCACTGCCGTACAGGCAGCTTAGAAA # Left flank : TTTTTATGTGCTCCGTGACTGACACACACAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAAGATGGCGGTGAGGCGGGGATTCGAACCCCGGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACACCTCACCAAATTGTTTTGCTGCCAGACCTCATAGGTGGCAACGGGGCGCTACTATAGGGAGTTGGAGTGAAACGGTCAAGAAGAATTTATATAGATTGATTTGTTTGGTTACGCAATGAACACGCTGTTCGCGGGACGGAGATTATGACCGTATGTGTTCTGGTCAATTGTTTATCAAAAGCTATGCAGAAAATATGAGATGAAGAAATACCAAATCGACCCTTTTTTTAGGGCGAAATGTAACTCATTGATTTTATTTATTTCTATTTTGAAGTCTGGAAAAAGGGTTTGAATCTGCGATTTTGTAACTTTTAACAATAAATCAATCGGATAGTCTGCTATTATTCCA # Right flank : ACTCAACACTCCATCCTCTAATATTTATTCCCCATAACTCACAGACGCAAAAAAGGTCGGCTAAACCGACCTTTTACTCGTTCTTTCTCTTCGCCCATCAGGCGGTAAAACAATCAGCGACTACGGAAGACAATGCGGCCTTTGCTCAGGTCGTACGGGGTCAGTTCAACAGTCACTTTGTCGCCCGTCAGGATGCGAATGTAGTTTTTGCGCATTTTACCGGAGATGTGTGCAGTAACCACGTGACCGTTTTCTAACTCTACGCGGAACATGGTATTAGGCAACGTTTCAAGAACGGTACCTTGCATTTCAATATTGTCTTCTTTGGCCATCTAATCCTCTGGGGTATCACTACCGTAATTTGAACCGGCAAGATAATGCCGAAGTTCTGTAAATAAGTAAAGATTTGCGCGCTAAATCGCAACAAACAGGTTCGGCACATTACTCCGAAAACACACGGCTAAGCCGCACCAAAAGCGCAACGTATAAGGGAGCGGTGA # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 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 : GTTCACTGCCGTACAGGCAGCTTAGAAA # 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 [8,6] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTTCACTGCCGTACAGGCAGCTTAGAAA with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-8.00,-7.70] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-56.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.92,0 Confidence: HIGH] # Array family : I-F [Matched known repeat from this family], //