Array 1 687-56 **** Predicted by CRISPRDetect 2.4 *** >NZ_FWDW01000464.1 Listeria monocytogenes isolate 5485, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== =============================== ================== 686 35 97.2 30 -................................... TGGTAATTTAGTATCTATTACGGCTGGGAA 621 36 100.0 30 .................................... AGTTCATGCAGATGTTCCAACAGACTATGA 555 36 100.0 30 .................................... AACAGCTCGGTTCACAGCCCAAACAGGCGA 489 36 100.0 31 .................................... TAGCATCCCTTTGTTGAAAACATAGTCTGAA 422 36 100.0 31 .................................... TAGCATCCCTTTGTTGAAAACATAGTCTGAA 355 36 100.0 30 .................................... TTAAATTTCCCTTCTAACACTATCTATCAA 289 36 100.0 30 .................................... ACGTGATGGTCCTTGGAAAAGGAGATTACT 223 36 100.0 30 .................................... TAGTTATTTGCTTAGAAATGTCATCCATCA 157 36 100.0 30 .................................... CTAGAAGCTTTGACATTAATATTACGCTTA 91 36 100.0 0 .................................... | ========== ====== ====== ====== ==================================== =============================== ================== 10 36 99.7 30 GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC # Left flank : | # Right flank : CAAATAATTTTTTTGATCATGTTGCAACAGCGTTTTAGAGCTATGTTATTTTGAAT # 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 : GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC # 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:70.27%AT] # Reference repeat match prediction: R [matched GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-1.10,-1.30] Score: 0/0.37 # Array degeneracy analysis prediction: F [1-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [68.3-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.68,4.5 Confidence: HIGH] # Array family : II-A/C [Matched known repeat from this family], // Array 1 449-17 **** Predicted by CRISPRDetect 2.4 *** >NZ_FWDW01000466.1 Listeria monocytogenes isolate 5485, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ============================== ================== 448 36 100.0 30 .................................... TAGTTATTTGCTTAGAAATGTCATCCATCA 382 36 100.0 30 .................................... CTAGAAGCTTTGACATTAATATTACGCTTA 316 36 100.0 30 .................................... AAATAATTTTTTTGATCATGTTGCAACAGC 250 36 100.0 30 .................................... TGCAATATTGTCTGGATCTTTTTTCTTGTT 184 36 100.0 30 .................................... AGTTAGATAGATAAACAAACTAAACAAAGG 118 36 100.0 30 .................................... TAGTTTTTCTTCGTCCTCTAAACGCAAGCT 52 36 100.0 0 .................................... | ========== ====== ====== ====== ==================================== ============================== ================== 7 36 100.0 30 GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC # Left flank : | # Right flank : CTGTCTGAATGTAGTTG # 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 : GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC # 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:69.44%AT] # Reference repeat match prediction: R [matched GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-0.80,-1.30] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [16.7-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,4.87 Confidence: HIGH] # Array family : II-A/C [Matched known repeat from this family], // Array 1 82870-83036 **** Predicted by CRISPRDetect 2.4 *** >NZ_FWDW01000001.1 Listeria monocytogenes isolate 5485, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ============================== ================== 82870 36 100.0 30 .................................... TCGTGATTTCTTCCTCATGCGCGCTTTTGA 82936 36 100.0 30 .................................... TTATCAGCAATTGAAACTATTAAAAATGAC 83002 35 97.2 0 ...................................- | ========== ====== ====== ====== ==================================== ============================== ================== 3 36 99.1 30 GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC # Left flank : GACAAATTAACCGCGACGATTAGCGAGTTGATAGGTTACGAATTATTGGAGCATGAGCTGGATTTAGAAGAAGATGAAATAACGGTCATTGAATTATTCAAAGCTTTAGGAATAAAAATAGAAACAAAAAGCGATACCGTATTTGAGAAGTTAATTGAAATAGTACAAGTCTATAAATATCTATCTAAAAAGAAATTGTTAGTACTTATTAACGTGTGTTCCTATCTTACAGAGGAAGAACTGCTAGAGTTGAGACGGTATATCTCTTTATATCAAGTCAAAGTACTATTTATTGAACCTAGAAAAATAAAAGGATCTCCGCAAGTTACTTTAGATTCTGATTATTTTTTACATGTGGAAAATAGTGTATAAGGTAACCGCTGTTCTTTGAAAACAAAATAAATTTTATGTAAACCATAAAATAGCATTCAAAATTGAAATCTTGCTATGGATGAATGGCGCGATTACGGAATCTTGGAGGAAAGAAAAAATTCTGCGAG # Right flank : | # Questionable array : NO Score: 5.31 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 5:0, 6:0.25, 7:0.02, 8:0.4, 9:0.69, # 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 : GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC # 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:70.27%AT] # Reference repeat match prediction: F [matched GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-1.30,-0.80] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [56.7-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.55,0 Confidence: HIGH] # Array family : II-A/C [Matched known repeat from this family], // Array 1 29-394 **** Predicted by CRISPRDetect 2.4 *** >NZ_FWDW01000467.1 Listeria monocytogenes isolate 5485, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ============================== ================== 29 36 100.0 30 .................................... TGCAAATGCGTTTAAATCGATGGGTAGCGC 95 36 97.2 30 ..................................C. ACACGTGTGGTAGAAGAGGGCTCTGACGCT 161 36 97.2 30 ........T........................... TAGTTTTTCTTCGTCCTCGAAACGCAAGCT 227 36 100.0 30 .................................... GTATGAAACGGTTAAATGGATCTCTATAGC 293 36 97.2 30 .A.................................. TTTAATGATTTTCTTTTGCGCGCCGTTGGT 359 36 100.0 0 .................................... | ========== ====== ====== ====== ==================================== ============================== ================== 6 36 98.6 30 GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC # Left flank : GTGCCAGTAAATTCAGTTCCTCCAAAGGG # Right flank : TAACAGTGTATTTCTATTGCTCGGTGTGTTGTTTTAGAGCTATGTTATTTTGAAT # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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 : GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC # 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:70.59%AT] # Reference repeat match prediction: F [matched GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-1.30,-0.10] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [25.0-65.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.28,0.27 Confidence: HIGH] # Array family : II-A/C [Matched known repeat from this family], // Array 1 7433-5480 **** Predicted by CRISPRDetect 2.4 *** >NZ_FWDW01000020.1 Listeria monocytogenes isolate 5485, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== =============================== ================== 7432 36 100.0 30 .................................... TCGTGATTTCTTCCTCATGCGCGCTTTTGA 7366 36 100.0 30 .................................... TTATCAGCAATTGAAACTATTAAAAATGAC 7300 36 100.0 30 .................................... CCTAGACCTAGATGCTACTAGAGTGGACGA 7234 36 100.0 30 .................................... TAATGCATCTTTATATTGATTTACCTCACC 7168 36 100.0 31 .................................... TGGAAATGAACGATTGTCGGCATTCACGAAT 7101 36 100.0 30 .................................... AGATATGGGCGAACTACCCGACGACAACAA 7035 36 100.0 30 .................................... GAAGAAGTCACTAGTTGGGTCAAGCAAGGC 6969 36 100.0 30 .................................... TAGTGCCAGTAAATTCAGTTCCTCCAAAGG 6903 36 100.0 30 .................................... TGTAAATGCGTTTAAATCGATGGGAAGCGC 6837 36 100.0 30 .................................... ACACGTGTGGAAGAAGAGGGCTCTGACGCT 6771 36 100.0 30 .................................... GTATGAAACGGTTAAATGGATCTCTATAGC 6705 36 100.0 30 .................................... TTTAATGATTTTCTTTTGCGCGCCGTTGGT 6639 36 100.0 30 .................................... TAACAGTGTATTTCTATTGCTCGGTGTGTT 6573 36 100.0 30 .................................... TGGAGATAACGAAGAGTAAAGCGAGGCAGC 6507 36 100.0 30 .................................... GCGTTGAACCAGAAGGTGGGAAAGAAACAC 6441 36 100.0 30 .................................... TGGTAATTTAGTATCTATTACGGCTGGGAA 6375 36 100.0 30 .................................... AGTTCATGCAGATGTTCCAACAGACTATGA 6309 36 100.0 30 .................................... AACAGCTCGGTTCACAGCCCAAACAGGCGA 6243 36 100.0 31 .................................... TAGCATCCCTTTGTTGAAAACATAGTCTGAA 6176 36 100.0 31 .................................... TAGCATCCCTTTGTTGAAAACATAGTCTGAA 6109 36 100.0 30 .................................... TTAAATTTCCCTTCTAACACTATCTATCAA 6043 36 100.0 30 .................................... ACGTGATGGTCCTTGGAAAAGGAGATTACT 5977 36 100.0 30 .................................... TAGTTATTTGCTTAGAAATGTCATCCATCA 5911 36 100.0 30 .................................... CTAGAAGCTTTGACATTAATATTACGCTTA 5845 36 100.0 30 .................................... AAATAATTTTTTTGATCATGTTGCAACAGC 5779 36 100.0 30 .................................... TGCAATATTGTCTGGATCTTTTTTCTTGTT 5713 36 100.0 30 .................................... AGTTAGATAGATAAACAAACTAAACAAAGG 5647 36 100.0 30 .................................... TAGTTTTTCTTCGTCCTCTAAACGCAAGCT 5581 36 100.0 30 .................................... TGTCTGAATGTAGTTGATATCTTTAACTTG 5515 36 72.2 0 .........A..CA.....C.....A.C.A..C.TA | ========== ====== ====== ====== ==================================== =============================== ================== 30 36 99.1 30 GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC # Left flank : GCTATGGATGAATGGCGCGATTACGGAATCTTGGAGGAAAGAAAAAATTCTGCGA # Right flank : GAGACAAAATGCATCGCAATTACCAAACCATGGTTAAATTTAAAAAGGAGTTAAACTATCTACATGACACAGTATCACTATCTTGCTTCGAAGTCGCTCTTAGAAAAGGACGGAGAAAAGTTTCCTCATCTCTATATATACTAGAGTGGCTTAGACTTCTTAAATCCGAATTTTGAAATGAATGTTGACCAAGATAAAGATATAAATAAATTGTTTCCCTATTCAATTCGTTTCAACTCAACTTGCAAATTTCAAGTTGCTACAAGCAAAGGGGATATACCGTTGAAAGTGGAGGAGCAAAATAATTGTTACGAGACCAAAAGTTTAAAAATTTTATATGATTATATTCTAAATGCGAGTAAAAATGGTGACACGCTTGAACTATATACTGTTTGGACAGCGAGAAAGATTTACCGTTAACGCACAAACCAGAACTGCTTTAACTATCGGAAATCTAGTTTTAAGTGACAGAGAGCTATTAATAATTAAAAGTGAGACAC # 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 : GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC # 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:69.44%AT] # Reference repeat match prediction: R [matched GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-0.80,-1.30] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [10-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [68.3-51.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.28 Confidence: HIGH] # Array family : II-A/C [Matched known repeat from this family], // Array 1 501-2 **** Predicted by CRISPRDetect 2.4 *** >NZ_FWDW01000411.1 Listeria monocytogenes isolate 5485, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== =============================== ================== 500 36 100.0 30 .................................... TCGTGATTTCTTCCTCATGCGCGCTTTTGA 434 36 100.0 30 .................................... TTATCAGCAATTGAAACTATTAAAAATGAC 368 36 100.0 30 .................................... CCTAGACCTAGATGCTACTAGAGTGGACGA 302 36 100.0 30 .................................... TAATGCATCTTTATATTGATTTACCTCACC 236 36 100.0 31 .................................... TGGAAATGAACGATTGTCGGCATTCACGAAT 169 36 100.0 30 .................................... AGATATGGGCGAACTACCCGACGACAACAA 103 36 100.0 30 .................................... GAAGAAGTCACTAGTTGGGTCAAGCAAGGC 37 36 100.0 0 .................................... | ========== ====== ====== ====== ==================================== =============================== ================== 8 36 100.0 30 GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC # Left flank : ATTGAAATCTTGCTATGGATGAATGGCGCGATTACGGAATCTTGGAGGAAAGAAAAAATTCTGCGA # Right flank : CT # 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 : GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC # 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:69.44%AT] # Reference repeat match prediction: R [matched GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-0.80,-1.30] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: R [1.7-56.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.14 Confidence: HIGH] # Array family : II-A/C [Matched known repeat from this family], // Array 1 58542-59282 **** Predicted by CRISPRDetect 2.4 *** >NZ_FWDW01000015.1 Listeria monocytogenes isolate 5485, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 58542 29 100.0 36 ............................. TCTTTAGTTGTTACTTGTTGGTTAATGAGATCTACC 58607 29 100.0 36 ............................. TGCTCTCTTTTGTGTAAAGCACATCAAGCATGTAGC 58672 29 100.0 35 ............................. GCGATTTTTGTCAAAGGGACAGCGATGGGTTACAA 58736 29 100.0 37 ............................. TTACCACCAAAGTCCCTACACTCAATACCACCAAAGC 58802 29 100.0 35 ............................. CGCTCTGACCTGTTCCTTGTGCAACACTCGTTACA 58866 29 100.0 34 ............................. TTTTCTACTCCTGCTTCTAAAATGTCGTTTATAA 58929 29 100.0 35 ............................. CTAAAACATCCTTCACTGTATCAACTCCTTTCTAT 58993 29 96.6 36 A............................ AAAATAGGAGGAAATAAATTATGACTATCAAATTAA 59058 29 100.0 35 ............................. TTTGTTGAATCAACGGATATAGATTTTACAATTTC 59122 29 96.6 37 ................A............ TTGGTTCCTTTGGAAAACAACAATAACGTGTAGTATT 59188 29 75.9 36 ......T.C.A.C...CA...T....... GCAGAAGCAGCAAAATAACCAAAAGTAATGACTTTC G [59211] 59254 29 79.3 0 ......A..T....AGA......A..... | ========== ====== ====== ====== ============================= ===================================== ================== 12 29 95.7 36 GTTTTAGTTACTTATTGTGAAATGTAAAT # Left flank : CGTCCGTGCCACTACTTCAGCTGATATTTTACTTGAAAAAGGTGCCGTAGAAGTTATCGCTTGCGCAACCCACTCCGTCATGGCTGGAAACGCAACCGAACGCTTACAAAACTCCAATATCAAAGAAGTCATCACATCCGACTCCATCGATCTTCCAGAAGACAAGCAATTCGACAAACTAACAACCATCTCCATCGGACGAATCTTAGGCCGCGCAATCGAAGGCGTACAAGAAAACCGCTCGTTGCATCCGTTGTTTTAAAGAATAAGCAGAAAACAGTAACTTAGTAGAGTTGCTGTTTTTTTGTTATCTGTCGACCTCGAGTAGCGTGAAAAATACCGGGGATCGACAGAAAGTTGTAAGTGGTTGGGGTGGAAGAAGTTTGGCGGTATTTGCTTGGGGGAAATCTTCCGGATAAGAGGAGATTTTAGATGTTTTTTGGTAGGTCGACAGAAATAGCTCTTTGAGGTAAGATGGGAGTAAGAAGAAAAGTTAGTGG # Right flank : TGAAAACCTGTTATACATAGGATTATCTATTTCCGTTATAATTATTCCTTGCAAATAAATTCCAAAAAACAAACCCCTCATTAATTGGGTTTGTTTTTTTGTGAATAATTATAGTCAAACGAGCAATCTGTTAACAATTTAGCAATAAACGCAATAAAAAGCCGTTTTTTCACTATGGATTGTACTATAAAACATAATCTACCTATGCTAAAATTTAAGGGAAGGTAAGCTGAATAATACATATAAGGAGGACTCTACTATTGAAAAAGATTCTAGTGCCCATATTATTGTTAGCAACAATCTTAGCAAGCTGTTCCTCGCCGAATGAAAAAATAACCAAAGACACTAAAATATCCAAGACTATTACAATAAGAGCAGATTACAAAGTTCCAAAAGATATTAAAGAACTTGAGGATGATAGTGCTAATATTGTTAAAGTAAAATTTCTTCAAAATAAAACGATAGGCAAGGATGGTAGTACTATCAGCGAGATAGAAATT # Questionable array : NO Score: 6.05 # Score Detail : 1:0, 2:3, 3:0, 4:0.79, 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 : GTTTTAGTTACTTATTGTGAAATGTAAAT # 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:79.31%AT] # Reference repeat match prediction: F [matched GTTTTAGTTACTTATTGTGAAATGTAAAT with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-1.20,0.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-16] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [58.3-75.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.28,0.27 Confidence: HIGH] # Array family : II-A [Matched known repeat from this family], // Array 1 8-439 **** Predicted by CRISPRDetect 2.4 *** >NZ_FWDW01000456.1 Listeria monocytogenes isolate 5485, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ============================== ================== 8 36 100.0 30 .................................... TAACAGTGTATTTCTATTGCTCGGTGTGTT 74 36 100.0 30 .................................... TGGAGATAACGAAGAGTAAAGCGAGGCAGC 140 36 100.0 30 .................................... GCGTTGAACCAGAAGGTGGGAAAGAAACAC 206 36 100.0 30 .................................... TGGTAATTTAGTATCTATTACGGCTGGGAA 272 36 100.0 30 .................................... AGTTCATGCAGATGTTCCAACAGACTATGA 338 36 100.0 30 .................................... AACAGCTCGGTTCACAGCCCAAACAGGCGA 404 36 100.0 0 .................................... | ========== ====== ====== ====== ==================================== ============================== ================== 7 36 100.0 30 GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC # Left flank : CGTTGGTG # Right flank : | # 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 : GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC # 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:69.44%AT] # Reference repeat match prediction: F [matched GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-1.30,-0.80] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [5.0-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.87,0 Confidence: HIGH] # Array family : II-A/C [Matched known repeat from this family], // Array 1 56-421 **** Predicted by CRISPRDetect 2.4 *** >NZ_FWDW01000465.1 Listeria monocytogenes isolate 5485, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ============================== ================== 56 36 100.0 30 .................................... TGAAAATGCGTTTAAATCGATGGGAAGCGC 122 36 100.0 30 .................................... ACACGTGTGGAAGAAGAGGGCTCTGACGCT 188 36 100.0 30 .................................... GTATGAAACGGTTAAATGGATCTCTATAGC 254 36 100.0 30 .................................... TTTAATGATTTTCTTTTGCGCGCCGTTGGT 320 36 100.0 30 .................................... TAACAGTGTATTTCTATTGCTCGGTGTGTT 386 36 100.0 0 .................................... | ========== ====== ====== ====== ==================================== ============================== ================== 6 36 100.0 30 GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC # Left flank : ATGTTATTTTGAATGCTACCAAAACTAGTGCCAGGAAATTCAGTTCCTCCAAAGGG # Right flank : TGGAGATAACGAAGAGTAAAGCGAGGCAGCGTTTTAGAGC # 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 : GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC # 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:69.44%AT] # Reference repeat match prediction: F [matched GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-1.30,-0.80] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [56.7-35.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.14,0 Confidence: HIGH] # Array family : II-A/C [Matched known repeat from this family], //