Array 1 107098-106110 **** Predicted by CRISPRDetect 2.4 *** >NZ_AROS01000025.1 Salmonella enterica subsp. enterica serovar Newport str. SHSN010 contig2_3, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 107097 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 107036 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 106975 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 106914 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 106853 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 106791 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 106688 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 106627 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 106566 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 106505 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 106444 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 106383 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 106322 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 106261 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 106200 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 106139 29 96.6 0 A............................ | A [106112] ========== ====== ====== ====== ============================= ========================================================================== ================== 16 29 99.6 35 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TGTTTGCCTCGCCCGCTGC # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.05 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.18, 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: F [50.0-10.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 854-31 **** Predicted by CRISPRDetect 2.4 *** >NZ_AROS01000026.1 Salmonella enterica subsp. enterica serovar Newport str. SHSN010 contig2_4, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 853 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 792 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 731 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 670 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 609 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 548 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 487 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 425 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 364 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 303 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 242 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 181 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 120 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 59 29 96.6 0 ............................T | ========== ====== ====== ====== ============================= ================================= ================== 14 29 99.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TGAGGCGTACAGGCTGTTAGATGAGAAATTA # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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: NA [1-1] Score: 0/0.41 # AT richness analysis in flanks prediction: R [28.3-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 18478-16985 **** Predicted by CRISPRDetect 2.4 *** >NZ_AROS01000026.1 Salmonella enterica subsp. enterica serovar Newport str. SHSN010 contig2_4, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 18477 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 18416 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 18355 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 18294 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 18233 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 18172 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 18111 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 18050 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 17989 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 17928 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 17867 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 17806 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 17745 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 17684 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 17623 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 17562 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 17500 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 17439 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 17378 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 17317 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 17256 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 17195 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 17134 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 17073 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 17012 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], //