Array 1 163874-162092 **** Predicted by CRISPRDetect 2.4 *** >NZ_NPKY01000002.1 Salmonella enterica strain CFSAN064287 CFSAN064287_2, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 163873 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 163812 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 163751 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 163690 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 163629 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 163567 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 163506 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 163445 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 163384 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 163323 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 163262 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 163201 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 163140 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 163079 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 163018 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 162957 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 162896 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 162835 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 162773 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 162670 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 162609 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 162548 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 162487 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 162426 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 162365 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 162304 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 162243 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 162182 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 162121 29 96.6 0 A............................ | A [162094] ========== ====== ====== ====== ============================= ========================================================================== ================== 29 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.14 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.09, 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 [3-0] 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 181499-180006 **** Predicted by CRISPRDetect 2.4 *** >NZ_NPKY01000002.1 Salmonella enterica strain CFSAN064287 CFSAN064287_2, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 181498 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 181437 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 181376 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 181315 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 181254 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 181193 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 181132 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 181071 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 181010 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 180949 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 180888 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 180827 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 180766 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 180705 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 180644 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 180583 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 180521 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 180460 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 180399 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 180338 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 180277 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 180216 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 180155 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 180094 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 180033 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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 : 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 [9-1] 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], //