Array 1 162671-160706 **** Predicted by CRISPRDetect 2.4 *** >NZ_JADDIF010000002.1 Salmonella enterica subsp. enterica strain SGEHI2016-PSU-BS-030SL opera_scaffold_2, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 162670 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 162609 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 162548 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 162487 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 162426 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 162365 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 162304 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 162242 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 162181 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 162120 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 162059 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 161998 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 161937 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 161876 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 161815 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 161754 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 161693 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 161632 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 161571 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 161510 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 161449 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 161387 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 161284 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 161223 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 161162 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 161101 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 161040 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 160979 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 160918 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 160857 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 160796 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 160735 29 96.6 0 A............................ | A [160708] ========== ====== ====== ====== ============================= ========================================================================== ================== 32 29 99.6 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.08, 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 180295-178802 **** Predicted by CRISPRDetect 2.4 *** >NZ_JADDIF010000002.1 Salmonella enterica subsp. enterica strain SGEHI2016-PSU-BS-030SL opera_scaffold_2, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 180294 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 180233 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 180172 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 180111 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 180050 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 179989 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 179928 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 179867 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 179806 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 179745 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 179684 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 179623 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 179562 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 179501 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 179440 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 179379 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 179317 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 179256 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 179195 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 179134 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 179073 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 179012 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 178951 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 178890 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 178829 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], //