Array 1 1162-35 **** Predicted by CRISPRDetect 2.4 *** >NZ_CTJS01000004.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain H39 isolate H39, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1161 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 1100 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 1039 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 978 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 917 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 856 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 795 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 734 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 673 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 612 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 551 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 490 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 429 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 368 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 307 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 246 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 185 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 124 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 63 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 19 29 99.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GGCGAGGTCAATAAAAAATGGTGTGGCTTTACCGT # 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 : 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: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: R [31.7-70.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 36-856 **** Predicted by CRISPRDetect 2.4 *** >NZ_CTJS01000010.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain H39 isolate H39, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 36 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 97 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 158 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 219 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 280 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 341 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 402 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 463 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 524 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 585 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 646 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 707 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 768 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 829 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 14 29 97.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCGAGCCGTTTCCGCTAAATACCCCCGCAGTGATTG # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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 : 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: R [25.0-63.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 16989-17139 **** Predicted by CRISPRDetect 2.4 *** >NZ_CTJS01000010.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain H39 isolate H39, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 16989 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 17050 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 17111 29 93.1 0 ...........................AC | ========== ====== ====== ====== ============================= ================================ ================== 3 29 97.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : CGTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTC # Questionable array : NO Score: 5.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 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 : 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 [0-2] 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], //