Array 1 108480-107901 **** Predicted by CRISPRDetect 2.4 *** >NZ_NQWD01000028.1 Salmonella enterica subsp. enterica serovar Stanley strain UPM 517 contig_28_consensus, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 108479 29 100.0 32 ............................. GCGGGACCTCCAGCGCCACTGCTAATATTCGT 108418 29 96.6 32 ............................T GTCCCGTACGAGATACTCCAGCGCCTGCCCGC 108357 29 100.0 32 ............................. GAGTAATGGATGCCCTGCCCGGCGATTGGATT 108296 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 108235 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 108174 29 100.0 32 ............................. GTGATTCGCCAGTTCGCCCGAACGGTGATCGC 108113 29 100.0 32 ............................. GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 108052 29 100.0 32 ............................. GCAGAAACAGAAACCGGATATGAGCCATCCAT 107991 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 107930 29 93.1 0 A...........T................ | A [107903] ========== ====== ====== ====== ============================= ================================ ================== 10 29 99.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGTTGCGGAAATGCCGTCATGGCTTGGGCGACCAACACGGAGTCGGGATTTGAGTTTCAGACATGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTTGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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: 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 126165-124612 **** Predicted by CRISPRDetect 2.4 *** >NZ_NQWD01000028.1 Salmonella enterica subsp. enterica serovar Stanley strain UPM 517 contig_28_consensus, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 126164 29 100.0 32 ............................. TTGTCATGCGGCGCTGCGAGCGTGCGGCCTTT 126103 29 100.0 32 ............................. CGTCCAATACGAGCCGAGTGCGCACGCCCTTA 126042 29 100.0 32 ............................. CCTGACTGCCGCCGGTGTAGGTGGCGAATGCA 125981 29 100.0 32 ............................. TGAAACGTGGCCCCGCGTGTGTTTTGGTTCGT 125920 29 100.0 32 ............................. CGCCACGGAATATCTCCATCGGTCGGGTGAGG 125859 29 100.0 32 ............................. GCTGCCAGCACTACTACCCGCCGTCGTTCCGC 125798 29 100.0 32 ............................. CAGATCGGCCTCTGATTTAGACAATTTCAGTT 125737 29 100.0 32 ............................. CGCCGCGAGGTGATCGAGATGCTTGAGGGTAT 125676 29 100.0 32 ............................. GTATCTCGAAGAGCGTCAAAAAAGCCGGAATG 125615 29 100.0 32 ............................. GGGCATGAGTGCTACTGCTTTCAACCCGAAAG 125554 29 100.0 32 ............................. ATAAATTATCGGGAAATCATAATCAGCGCCGC 125493 29 100.0 32 ............................. AAAACCCTCAAATATGCGTAACGGGAGGCTGG 125432 29 100.0 32 ............................. GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 125371 29 100.0 32 ............................. TCAGCGTAGGTTGTTGACGTCCCCACCAGCCC 125310 29 100.0 32 ............................. CCATTTTTGATCATCTCCTCCAGCCTGCTGAG 125249 29 96.6 32 .............T............... CACTGGAGATATAGCTGCTGTCGTCATCGGGT 125188 29 96.6 32 .............T............... TGGGAACCGTCAAGGCCCGAGGGTGACGGCTG 125127 29 96.6 32 .............T............... GATTGTTCAGATTGGGAATTTGACCAACGCCC 125066 29 96.6 32 .............T............... GTTACTGTATTATCTCTCGCATAGACCCGGCA 125005 29 96.6 32 .............T............... CCTGAGGAGATATTCACCTTCCTGCATTTCAT 124944 29 96.6 32 .............T............... TCTGGTGGCTGCCTCATATTGTTGCGCATCTA 124883 29 96.6 32 .............T............... AAAAAAATGCGATCGGTACTCAACCCGGCCAC 124822 29 96.6 32 ............T................ CGCCGGTTTCGGTGGGGGCTGAATCCTGAACC 124761 29 100.0 32 ............................. TGGGACATTCTCGCTAGTCACGGTCATGTCAT 124700 29 100.0 32 ............................. TGCGCCAACGACTGGAATTTTTGCGTGTAGCC 124639 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 26 29 98.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCGCGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCGATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGATCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTAGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 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 : GTGTTCCCCGCGCTAGCGGGGATAAACCG # 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 [6-0] 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], //