Array 1 166750-165273 **** Predicted by CRISPRDetect 2.4 *** >NZ_VHNA01000011.1 Salmonella enterica subsp. enterica serovar Typhimurium strain RS16 scaffold11_size188849, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 166749 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 166688 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 166626 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 166565 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 166504 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 166443 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 166382 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 166321 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 166260 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 166199 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 166138 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 166077 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 166016 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 165954 29 100.0 32 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATT 165893 28 75.9 14 ..............GA..C.T-.C..G.. CACGTTACTCGATC Deletion [165852] 165851 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 165790 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 165729 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 165668 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 165607 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 165546 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 165485 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 165424 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 165363 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 165302 29 96.6 0 A............................ | A [165275] ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.6 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.13 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 5:0, 6:0.25, 7:-0.05, 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 184436-182882 **** Predicted by CRISPRDetect 2.4 *** >NZ_VHNA01000011.1 Salmonella enterica subsp. enterica serovar Typhimurium strain RS16 scaffold11_size188849, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 184435 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 184374 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 184313 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 184252 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 184191 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 184130 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 184069 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 184008 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 183947 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 183886 29 96.6 32 .............G............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 183825 29 100.0 32 ............................. AATTATTTCTGTGGCTGTGGTTTCGATTCGAT 183764 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 183703 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 183642 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 183581 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 183520 29 100.0 32 ............................. CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 183459 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 183397 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 183336 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 183275 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 183214 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 183153 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 183092 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 183031 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 182970 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 182909 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 26 29 98.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCGCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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 [10-1] 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], //