Array 1 5-278 **** Predicted by CRISPRDetect 2.4 *** >NZ_JRCK01000025.1 Salmonella enterica subsp. enterica serovar Bareilly str. CFSAN000755 CFSAN000755_contig0024, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 5 29 96.6 32 ............C................ AGTTTCTTGTGACGCTTCTATTCAGGACAAAA 66 29 96.6 32 ............C................ CCAGATCGCGCAAATCGCTGCGAGTATTCAGG 127 29 100.0 32 ............................. TCCACGTCGCCCGCCATCAGGTTCGCCAGCTC 188 29 93.1 32 .................C....G...... AACTGGTACACCCGCCTGACGTTTGTTCAGCT 249 29 100.0 0 ............................. | A [276] ========== ====== ====== ====== ============================= ================================ ================== 5 29 97.3 32 GTGTTCCCCGCGTCAGCGGGGATAAACCG # Left flank : CTGCG # Right flank : GTTTCAACAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCTCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTTGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCTGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 5.84 # Score Detail : 1:0, 2:3, 3:0, 4:0.86, 5:0, 6:0.25, 7:0.01, 8:0.8, 9:0.92, # 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 : GTGTTCCCCGCGTCAGCGGGGATAAACCG # 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: F [matched GTGTTCCCCGCGTCAGCGGGGATAAACCG 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 [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [1.7-50.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.28,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 64541-64752 **** Predicted by CRISPRDetect 2.4 *** >NZ_JRCK01000035.1 Salmonella enterica subsp. enterica serovar Bareilly str. CFSAN000755 CFSAN000755_contig0034, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 64541 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 64602 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 64663 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 64724 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 4 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATTGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTCCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGCGTGTTCCCCGCGCCA # Questionable array : NO Score: 5.86 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 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 [6,4] 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 [-14.90,-14.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-36.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.51,0.41 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 15449-14961 **** Predicted by CRISPRDetect 2.4 *** >NZ_JRCK01000067.1 Salmonella enterica subsp. enterica serovar Bareilly str. CFSAN000755 CFSAN000755_contig0066, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================================================================================================================= ================== 15448 26 89.7 32 ---.......................... TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 15390 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 15329 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 15268 29 100.0 32 ............................. GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 15207 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 15146 28 82.8 129 ...............A.AA.....G-... TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAA 14989 29 55.2 0 A.CA.AAGG.A..TG.A.C.......T.. | ========== ====== ====== ====== ============================= ================================================================================================================================= ================== 7 29 88.7 48 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : TTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGGCGAAAACTTTATCTGGTCAGGGGAAATACCGGTGGTCGCGCCTGAAGCCTACGGTATTTTTGGCGGCCACGATGCGGAGCCGGACTCTATTTTGGATGAGGGCGTACTGATTTACCAATCGACAAAAGGATTAGTCATCATTACGGGATGCGGGCATCG # Questionable array : NO Score: 3.93 # Score Detail : 1:0, 2:3, 3:0, 4:0.44, 5:0, 6:0.25, 7:-1.61, 8:1, 9:0.85, # 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 [-8.90,-10.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [17-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [48.3-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 1162-2410 **** Predicted by CRISPRDetect 2.4 *** >NZ_JRCK01000095.1 Salmonella enterica subsp. enterica serovar Bareilly str. CFSAN000755 CFSAN000755_contig0094, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1162 29 100.0 32 ............................. GCGGATCTGTTTTGAGGTGTTCTTCAACTGTG 1223 29 100.0 32 ............................. ACAATGTGTGCTCGTCCCATACGCGTTTGCTG 1284 29 100.0 32 ............................. ACTATTCGGTCAAAACAGCCTCCATTCTCAGC 1345 29 100.0 32 ............................. CCAGCGCAAGCGGGAAACAATCATCGGGCAAG 1406 29 100.0 32 ............................. GGCCAGTTCAACAAACACCACGACGCGGGAAT 1467 29 100.0 32 ............................. GGTGACGGCTTTGTCCGACCGCATCCGGGCCA 1528 29 100.0 32 ............................. ACGAGGGACGGCTGGCGCTGGAGAGATTTTCA 1589 29 100.0 32 ............................. ACCCGCTCCGCGCAGCTCGCAGCGTAATTCGA 1650 29 100.0 32 ............................. ACACATATACTCTCCCCGTTTGCATCATCAGG 1711 29 100.0 32 ............................. ATCGCTAAATCTAAAATGCCCTCGTACAGTGA 1772 29 100.0 32 ............................. CGCAATAAACGGCATCAGCTATAGCTTGATAG 1833 29 100.0 32 ............................. AAACTGCGTTTGAGTTCCAGCCGCTTTTTCCT 1894 29 100.0 32 ............................. GCCGACGACAAAATCACGGTCACAACGGGTAT 1955 29 100.0 32 ............................. GATTCGACTTTATAGGGATTGATTAGAGGAGA 2016 29 100.0 32 ............................. TTATCTATGCCATAGTGACCCCACGTTACATA 2077 29 100.0 32 ............................. TATAATTGGCGTCCATATATCTGGATATTTAC 2138 29 100.0 32 ............................. ATTGTTTCCCGCTTGCGCTTGCATCGCCGGAT 2199 29 100.0 32 ............................. CTTACTATCAGCTCGCGTGCTGTTTGCAGGCC 2260 29 100.0 32 ............................. GATGCCAAACTGGTCAAGCTGGCGATTATCAA 2321 29 100.0 32 ............................. GGAAATAAACTCCTTGAGCAGCGGCAAGCAAC 2382 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 21 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAATAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TGTGAACGTCGGATAAATACCGATTCCGCCTGCGTGTTCCCCGCGCCA # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [71.7-33.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.51,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //