Array 1 28959-27465 **** Predicted by CRISPRDetect 2.4 *** >NZ_ARYS01000037.1 Salmonella enterica subsp. enterica serovar Hartford str. 2012K-0272 NODE_39_length_45168_cov_44.862026, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 28958 29 100.0 32 ............................. CGAGCGCCGGAGTTGATTAGTGGTGCCGGGGA 28897 29 100.0 32 ............................. TAGCCGCGGCTCACCGTCTTTCGGTTCAGGCC 28836 29 100.0 32 ............................. CGGGCCGTCTTTCAGCGTCTTCCACTCGCCGC 28775 29 100.0 32 ............................. CGTTATAAGGCGGTAACAGCGAAAACGTATGA 28714 29 100.0 32 ............................. GCTCCCGACTCCTGAATGAAGGTGTCGATTAT 28653 29 100.0 32 ............................. ATCTGGAATTGTTGACGGTGGCTGATTTAGCA 28592 29 100.0 32 ............................. TCGCCTTTTCCAGTCGCCTGCACGCTATATCA 28531 29 100.0 32 ............................. TATAATTGGCGTCCATATATCTGGATATTTAC 28470 29 100.0 32 ............................. TTTAAATAGTGGGGTGATCCCGGTGAAAATCC 28409 29 100.0 32 ............................. GTTCAATTCGGTTTCCACTTCCCGCTACATCG 28348 29 100.0 32 ............................. ATTATCTCTCACTTGCTTCAATAAGCCCCCGC 28287 29 100.0 32 ............................. GCGTTGTTGTTATTCGCCAGACCAAGATTCCA 28226 29 100.0 32 ............................. TTGGCGTGCGGCGAGGTCATCAGATAAAGCGC 28165 29 100.0 32 ............................. TCGGCAGCTACTTCAGTGTTAGGCGGCATCCA 28104 29 100.0 32 ............................. CCACGGCGCAGGAAATCTCCTTTGTAACAGGG 28043 29 96.6 32 .G........................... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 27982 29 96.6 32 .............C............... TACCTGCCGCTACCGCGCTGGACTGCGCCGCC 27921 29 96.6 32 .............C............... TGTAATCTCTCTATTTATAATCTGTATTGTAC 27860 29 93.1 32 .............C..G............ CAACTGGTGATACGGTTATGTCTCGTATCGCA 27799 29 96.6 32 .............C............... GTGATCGAGTATTGCTCGTTGTCGGCGTGGGC 27738 29 96.6 32 .............C............... AGTAATCAACTCAATGCGCTCACAACGCAATG 27677 29 96.6 32 .............C............... CCAGATCGCGCAAATCGCTGCGAGTATTCAGG 27616 29 93.1 32 ............TC............... TCCACGTCGCCCGCCATCAGGTTCGCCAGCTC 27555 29 96.6 32 .............C............... AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 27494 29 89.7 0 A...........TC............... | A [27467] ========== ====== ====== ====== ============================= ================================ ================== 25 29 98.1 32 GTGTTCCCCGCGCTAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGTTGCGGAAATGCCGTCATGGCCTGGGCGACCAACACGGAGTCGGGATTTGAGTTTCAGACATGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGTACTACATCGCGGCTACGGCGCTCAATTCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCACTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.16 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 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 : GTGTTCCCCGCGCTAGCGGGGATAAACCG # Alternate repeat : GTGTTCCCCGCGCCAGCGGGGATAAACCG # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [5,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCTAGCGGGGATAAACCG 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 [9-0] 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 [0,5.55 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 260915-261857 **** Predicted by CRISPRDetect 2.4 *** >NZ_ARYS01000045.1 Salmonella enterica subsp. enterica serovar Hartford str. 2012K-0272 NODE_49_length_261977_cov_51.387241, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 260915 29 100.0 32 ............................. AGCACTTCACCGGATCGCTGGTTGTGCCGGTG 260976 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 261037 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 261098 29 100.0 32 ............................. ACGTTTTAACAGGGTAATATTTACTTAATTAT 261159 29 100.0 32 ............................. GTTACTTTATTATCTCTCGCATAGACCCGGCA 261220 29 100.0 32 ............................. AATATCTATAACGGAGCCGTTTTCATTGAGCG 261281 29 100.0 32 ............................. TGGATATTCATTGAGCGCTGGAAATTCAAAAA 261342 29 100.0 32 ............................. ACAACAACATATTGGTAAATCAGGATACTGGC 261403 29 100.0 32 ............................. GACATTTCAGTTTTGAGCATGAACCTGATTCA 261464 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 261525 29 100.0 32 ............................. AAAACCGTACAACAGACAAAATATAAATATTG 261586 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 261647 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 261708 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 261769 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 261830 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 16 29 98.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGATGACCCGTCCTGAATAGCGTTGACACGTTCCAGACTTAAATCCGGAGAACGTGATGATGACTGAGTT # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 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: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-6] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-63.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //