Array 1 162543-160578 **** Predicted by CRISPRDetect 2.4 *** >NZ_JRYU01000002.1 Salmonella enterica subsp. enterica serovar Typhimurium strain ST4024 ST4024_00002, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 162542 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 162481 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 162420 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 162359 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 162298 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 162237 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 162176 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 162114 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 162053 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 161992 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 161931 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 161870 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 161809 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 161748 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 161687 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 161626 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 161565 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 161504 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 161443 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 161382 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 161321 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 161259 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 161156 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 161095 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 161034 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 160973 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 160912 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 160851 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 160790 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 160729 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 160668 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 160607 29 96.6 0 A............................ | A [160580] ========== ====== ====== ====== ============================= ========================================================================== ================== 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 180167-178674 **** Predicted by CRISPRDetect 2.4 *** >NZ_JRYU01000002.1 Salmonella enterica subsp. enterica serovar Typhimurium strain ST4024 ST4024_00002, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 180166 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 180105 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 180044 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 179983 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 179922 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 179861 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 179800 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 179739 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 179678 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 179617 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 179556 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 179495 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 179434 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 179373 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 179312 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 179251 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 179189 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 179128 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 179067 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 179006 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 178945 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 178884 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 178823 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 178762 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 178701 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], //