Array 1 4029107-4027935 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAETZG010000001.1 Salmonella enterica subsp. enterica serovar Typhimurium strain SARA4 1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 4029106 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 4029045 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 4028983 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 4028922 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 4028861 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 4028800 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 4028739 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 4028678 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 4028616 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 4028513 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 4028452 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 4028391 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 4028330 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 4028269 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 4028208 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 4028147 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 4028086 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 4028025 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 4027964 29 96.6 0 A............................ | A [4027937] ========== ====== ====== ====== ============================= ========================================================================== ================== 19 29 99.5 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.08 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.14, 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: R [3-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 4046671-4045239 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAETZG010000001.1 Salmonella enterica subsp. enterica serovar Typhimurium strain SARA4 1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 4046670 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 4046609 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 4046548 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 4046487 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 4046426 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 4046365 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 4046304 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 4046243 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 4046182 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 4046121 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 4046060 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 4045999 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 4045938 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 4045877 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 4045816 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 4045755 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 4045694 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 4045633 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 4045572 29 100.0 32 ............................. CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 4045511 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 4045449 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 4045388 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 4045327 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 4045266 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 24 29 98.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAAGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 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: R [8-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-70.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //