Array 1 1-212 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYTS01000094.1 Salmonella enterica subsp. enterica serovar Senftenberg strain CVM N29321 N29321_contig_94, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1 29 100.0 32 ............................. CCTAATGGTGATGGGGCGTTTAATCTTATCTC 62 29 100.0 32 ............................. TGGTTTAATAGTATCGGGCAGCATTTTACCGA 123 29 100.0 32 ............................. ATCTCAATTAGTCCGTTTCCGGTTGAATCAAT 184 29 96.6 0 ...C......................... | ========== ====== ====== ====== ============================= ================================ ================== 4 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : TCCTGTCGGCGGTACGGTGGACATCC # Questionable array : NO Score: 5.82 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 5:0, 6:0.25, 7:0.01, 8:0.6, 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 [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [0.0-15.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 1-549 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYTS01000100.1 Salmonella enterica subsp. enterica serovar Senftenberg strain CVM N29321 N29321_contig_100, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1 29 100.0 32 ............................. CGAGTCTGGAAATTGAGGACACCGAAACCGGC 62 29 100.0 32 ............................. TGCTGGTGGGCGGTACGCCGTGCCAGGCGTTC 123 29 96.6 32 ............................T TATCCTTACCCTCAACGGCGCAGGCCGATCTC 184 29 100.0 32 ............................. CGATCTGGTGAGCGCATCGGTTCGGGAGAGTG 245 29 100.0 32 ............................. GATTGTTCAGATTGGGAATTTGACCAACGCCC 306 29 69.0 11 ................TAAT..CGT.T.C GTGAACCAGTT TT [326] Deletion [346] 348 29 100.0 32 ............................. GGGAATATCGTTAAAGTGGTTTACCACAATAT 409 29 100.0 32 ............................. GCGCTCAGGGCCGCCTTGCTGCGGGCACTCAT 470 29 100.0 32 ............................. GACGTGATCAAACAATTTGGCCGCCCGGAACA 531 19 65.5 0 ...................---------- | Deletion [550] ========== ====== ====== ====== ============================= ================================ ================== 10 29 93.1 30 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : GGATAAAC # Questionable array : NO Score: 5.70 # Score Detail : 1:0, 2:3, 3:0, 4:0.65, 5:0, 6:0.25, 7:-0.20, 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 [1-12] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [0.0-8.3]%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], // Array 1 1-206 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYTS01000095.1 Salmonella enterica subsp. enterica serovar Senftenberg strain CVM N29321 N29321_contig_95, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1 23 79.3 32 ------....................... GGGTGTACCACGGCATGATGACGGCCAGCCAT 56 29 100.0 32 ............................. ATTGACAACAGTCTGCTTACCCGAGCTGCTCC 117 29 100.0 32 ............................. TCCTGTCGGCGGTACGGTGGACATCCCGCAGG 178 29 96.6 0 .........A................... | ========== ====== ====== ====== ============================= ================================ ================== 4 29 94.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : CCAGTCAGCCACTGTTCTTTGCCGTACCTTTCGTGTTCCCCGCGCCAG # Questionable array : NO Score: 5.56 # Score Detail : 1:0, 2:3, 3:0, 4:0.70, 5:0, 6:0.25, 7:0.01, 8:0.6, 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 [5,1] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCTGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: R [0.0-31.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.87,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 1-1248 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYTS01000002.1 Salmonella enterica subsp. enterica serovar Senftenberg strain CVM N29321 N29321_contig_2, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1 29 100.0 32 ............................. CCAGTGCATTCGAACTCATGGAACGGTGCTAA 62 29 100.0 32 ............................. GCGCACCGCTTTAGAGTGCCAGGCATAGGCAA 123 29 100.0 32 ............................. ACACAATACGTATCAGTAAAGACACAAATTGT 184 29 100.0 32 ............................. CGCATTACCGGGAAAACCTGGGAAGAGACGAT 245 29 100.0 32 ............................. TCTTGTTTGTTTCTGATTCTTTTTCTGAATGA 306 29 100.0 32 ............................. AGTCAGAAGAGGACTCATTAGTATCACTCTCA 367 29 100.0 32 ............................. AATAAACAGCGTCGTAAATGGATCGAGGAAAT 428 29 100.0 32 ............................. CATCTCTCTATATGCAGCGCCAGCCAGCGCAA 489 29 100.0 32 ............................. CTTTCCTTGCGTCAATTTTGAGGGAGATTGAT 550 29 100.0 32 ............................. ATCCCGCGCTCTATTAAAATCTTTGATTGCGT 611 29 100.0 32 ............................. GTAATGTGCGCCGCGCCGGTGATATCTACTTT 672 29 96.6 32 .....T....................... CCATTGCTGACAGGCAGTGATTTCAATGTGTC 733 29 100.0 32 ............................. GTCATGAATGGCCTCATAAAAACGATGTTGGT 794 29 100.0 32 ............................. TGTTCGCGCTAAATAATGCAGTAGGCCGCGCT 855 29 100.0 32 ............................. CCAGAAATTTAAATGGCTATTCCTGGCTGTAG 916 29 100.0 32 ............................. GCGCAATTGCAGTTTGACGCGGTGCTGTCATT 977 29 100.0 32 ............................. TCGTTTGTGGCGTCAGTAATACTATTATCGGT 1038 29 96.6 32 .............T............... TTTTTAAATCCGGACAGACCCTGTAACGGATC 1099 29 100.0 32 ............................. ATCCGACTGTATGCCCAGCAGAACGAGGGCGC 1160 29 96.6 32 .............T............... CACGAGTGGCAAATTGATTTCGACGAAAAACC 1221 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 21 29 98.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGGGCTGGAGCGGATAAATCGTTGAAGGCCAGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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 [0-7] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%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], // Array 1 20060-20879 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYTS01000003.1 Salmonella enterica subsp. enterica serovar Senftenberg strain CVM N29321 N29321_contig_3, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 20060 29 100.0 32 ............................. CCGATATCAAAAAAGCGTTTAAACGCCTTGCC 20121 29 96.6 32 ............................T TCCTGCGCTTTGGCCAGTTTGGAACCCGCCGC 20182 29 100.0 32 ............................. GCACAATTTGTGCTTTTGCAATTCACTTTGAA 20243 29 100.0 32 ............................. TGATCACAGAACTGACCGGGTACACCATACCT 20304 29 100.0 32 ............................. TGATCACAGAACTGACCGGGTACACCATACCT 20365 29 100.0 32 ............................. TAACGCCGTTCTGCATACGCTCTACCGCGCGC 20426 29 100.0 32 ............................. GGGAATGTATGGATTTAGAAGAAGAGCTGGCA 20487 29 100.0 32 ............................. GGGTATTACGGCGACACAGCGCTTGTTGTCTA 20548 29 100.0 32 ............................. TTAACAAATGTTTTTAAAACGCTTATAACAAA 20609 29 100.0 32 ............................. TTTAAAAATTTATCTCGATAAATCCAACGATG 20670 29 100.0 32 ............................. AATGATCGTATTTTTCGCTACGTCGCACAAAT 20731 29 100.0 32 ............................. CCCGTTATTTGTAGTTAACGGGCACGTAGTGG 20792 29 100.0 32 ............................. ATCGGGCAGCTCAACGCGGCTATGAAAATCAC 20853 27 93.1 0 ...........................-- | ========== ====== ====== ====== ============================= ================================ ================== 14 29 99.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGCTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : | # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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 [1-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.92,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //