Array 1 1109405-1111017 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP041976.1 Salmonella enterica subsp. enterica serovar Typhimurium strain NCCP 16207 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1109405 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 1109466 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 1109527 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 1109588 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 1109649 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 1109710 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 1109771 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 1109832 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 1109893 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 1109954 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 1110015 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 1110076 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 1110137 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 1110198 29 100.0 31 ............................. AACAGGAACAGGAAAAAAAGATTTGTCCGGT 1110258 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 1110319 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 1110380 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 1110441 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 1110502 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 1110563 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 1110624 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 1110685 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 1110746 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 1110807 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 1110868 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 1110929 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 1110990 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 27 29 98.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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 : 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 [0-8] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-63.3]%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 1127148-1127787 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP041976.1 Salmonella enterica subsp. enterica serovar Typhimurium strain NCCP 16207 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1127148 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 1127209 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 1127270 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 1127331 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 1127392 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 1127453 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 1127514 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 1127575 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 1127636 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 1127697 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 1127758 29 96.6 0 A............................ | A [1127784] ========== ====== ====== ====== ============================= ================================ ================== 11 29 99.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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 [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [71.7-48.3]%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], //