Array 1 3121216-3119678 **** Predicted by CRISPRDetect 2.4 *** >NZ_CABVPD010000001.1 Salmonella enterica subsp. enterica serovar Typhimurium isolate 5d8c9f00c6184d00f9da85a6:sample:O1960-05, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 3121215 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 3121154 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 3121093 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 3121032 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 3120971 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 3120909 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 3120848 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 3120787 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 3120726 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 3120665 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 3120604 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 3120543 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 3120482 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 3120421 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 3120360 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 3120299 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 3120238 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 3120176 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 3120073 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 3120012 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 3119951 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 3119890 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 3119829 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 3119768 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 3119707 29 96.6 0 A............................ | A [3119680] ========== ====== ====== ====== ============================= ========================================================================== ================== 25 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.13 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.10, 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 3139329-3137348 **** Predicted by CRISPRDetect 2.4 *** >NZ_CABVPD010000001.1 Salmonella enterica subsp. enterica serovar Typhimurium isolate 5d8c9f00c6184d00f9da85a6:sample:O1960-05, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3139328 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 3139267 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 3139206 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 3139145 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 3139084 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 3139023 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 3138962 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 3138901 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 3138840 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 3138779 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 3138718 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 3138657 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 3138596 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 3138535 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 3138474 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 3138413 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 3138352 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 3138291 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 3138230 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 3138169 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 3138108 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 3138047 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 3137986 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 3137925 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 3137863 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 3137802 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 3137741 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 3137680 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 3137619 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 3137558 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 3137497 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 3137436 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 3137375 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 33 29 98.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGAGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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 [10-0] 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], //