Array 1 331-58 **** Predicted by CRISPRDetect 2.4 *** >NZ_JRDE01000114.1 Salmonella enterica subsp. enterica serovar Bareilly str. CFSAN000221 CFSAN000221_contig0113, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 330 29 100.0 32 ............................. GCGGATCTGTTTTGAGGTGTTCTTCAACTGTG 269 29 100.0 32 ............................. ACAATGTGTGCTCGTCCCATACGCGTTTGCTG 208 29 100.0 32 ............................. ACTATTCGGTCAAAACAGCCTCCATTCTCAGC 147 29 100.0 32 ............................. CCAGCGCAAGCGGGAAACAATCATCGGGCAAG 86 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 5 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAATAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GGGCCAGTTCAACAAACACCACGACGCGGGAATGTGTTCCCCGCGCCAGCGGGGATAA # Questionable array : NO Score: 6.06 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.01, 8:0.8, 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 [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: R [36.7-71.7]%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 1 15791-15091 **** Predicted by CRISPRDetect 2.4 *** >NZ_JRDE01000015.1 Salmonella enterica subsp. enterica serovar Bareilly str. CFSAN000221 CFSAN000221_contig0014, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 15790 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 15729 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 15668 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 15607 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 15545 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 15484 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 15423 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 15362 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 15301 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 15240 29 100.0 32 ............................. GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 15179 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 15118 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 12 29 97.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATTGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTCCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGGC # Questionable array : NO Score: 6.13 # Score Detail : 1:0, 2:3, 3:0, 4:0.87, 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 [5-1] 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], // Array 1 1-1251 **** Predicted by CRISPRDetect 2.4 *** >NZ_JRDE01000059.1 Salmonella enterica subsp. enterica serovar Bareilly str. CFSAN000221 CFSAN000221_contig0058, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1 29 100.0 32 ............................. ACGAGGGACGGCTGGCGCTGGAGAGATTTTCA 62 29 100.0 32 ............................. ACCCGCTCCGCGCAGCTCGCAGCGTAATTCGA 123 29 100.0 32 ............................. ACACATATACTCTCCCCGTTTGCATCATCAGG 184 29 100.0 32 ............................. ATCGCTAAATCTAAAATGCCCTCGTACAGTGA 245 29 100.0 32 ............................. CGCAATAAACGGCATCAGCTATAGCTTGATAG 306 29 100.0 32 ............................. AAACTGCGTTTGAGTTCCAGCCGCTTTTTCCT 367 29 100.0 32 ............................. GCCGACGACAAAATCACGGTCACAACGGGTAT 428 29 100.0 32 ............................. GATTCGACTTTATAGGGATTGATTAGAGGAGA 489 29 100.0 32 ............................. TTATCTATGCCATAGTGACCCCACGTTACATA 550 29 100.0 32 ............................. TATAATTGGCGTCCATATATCTGGATATTTAC 611 29 100.0 32 ............................. ATTGTTTCCCGCTTGCGCTTGCATCGCCGGAT 672 29 100.0 32 ............................. CTTACTATCAGCTCGCGTGCTGTTTGCAGGCC 733 29 100.0 32 ............................. GATGCCAAACTGGTCAAGCTGGCGATTATCAA 794 29 100.0 32 ............................. ACCATTACTGACGTGATGGCGGCGCAAGGGTT 855 29 100.0 32 ............................. GGAAATAAACTCCTTGAGCAGCGGCAAGCAAC 916 29 100.0 33 ............................. TGTGAACGTCGGATAAATACCGATTCCGCCTGC 978 29 100.0 32 ............................. AGTTTCTTGTGACGCTTCTATTCAGGACAAAA 1039 29 100.0 32 ............................. CCAGATCGCGCAAATCGCTGCGAGTATTCAGG 1100 29 96.6 32 ............T................ TCCACGTCGCCCGCCATCAGGTTCGCCAGCTC 1161 29 89.7 32 ............T....C....G...... AACTGGTACACCCGCCTGACGTTTGTTCAGCT 1222 29 96.6 0 ............T................ | A [1249] ========== ====== ====== ====== ============================= ================================= ================== 21 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : GTTTCAACAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCTCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTTGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCTGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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 [0-6] 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], //