Array 1 542-24 **** Predicted by CRISPRDetect 2.4 *** >NZ_AOXY01000021.1 Salmonella enterica subsp. enterica serovar Saintpaul str. JO2008 SEES2008_5, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 541 29 100.0 32 ............................. CAACAGCGTCCCGTATTCTGTATCGTTGACGG 480 29 100.0 32 ............................. CGCATTACTACCGGGATTAGTACCTATCAAAA 419 29 100.0 32 ............................. GCAGACGCTGCCGTCCCCCCGCTCGACGCTGA 358 29 100.0 32 ............................. CAGCGGGAAAACGTCCAAGTGCCCATATCCCC 297 29 100.0 32 ............................. CCTTCAGAACATGCGCGGTATTATTTTTGACC 236 29 100.0 32 ............................. CCGTGGAAAGAACCAGAACGCTGGATATTGGT 175 29 100.0 32 ............................. ACCACATCAATGACCACATCACGCAGATATTA 114 29 100.0 32 ............................. CGCCGTGTTTACTTCAATAGCGACGTTGTGAG 53 29 100.0 0 ............................. | C [43] ========== ====== ====== ====== ============================= ================================ ================== 9 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATTAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCGCGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGACATACGTTTAGT # Right flank : GAGGTTGACCATCGTCAGCTTCAT # 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 : GTGTTCCCCGCGCCAGCGGGGATAAACCGA # 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 [18.3-68.3]%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 1 14-529 **** Predicted by CRISPRDetect 2.4 *** >NZ_AOXY01000018.1 Salmonella enterica subsp. enterica serovar Saintpaul str. JO2008 SEES2008_6, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 14 29 100.0 32 ............................. ACCGTTATCTGCTGGTTGATACTTCCCCGAGC 75 29 100.0 32 ............................. CCGCAGAACGCCGCATCGCCGAACTGGACAAA 136 29 100.0 32 ............................. TGCCGGTTTATCTGCTCCGGACCAATCGACTA 197 29 96.6 32 ...................A......... CGCCGCCAGCTGGAAAAATGCCGCCTGTTAAT 258 29 100.0 32 ............................. CTCCAGCCGACGCATTCGCTTGATCGCTTTAT 319 29 100.0 32 ............................. GGGCTGGACCTCGATTTATTTAATACGTTTAT 380 29 100.0 32 ............................. TCCCAACTCGTCAGGGCGGTTATCCAGCGCCA 441 29 100.0 32 ............................. GTCACGAGGTCTGACGCGGATGTGATGAGTTA 502 28 93.1 0 .......................-.G... | ========== ====== ====== ====== ============================= ================================ ================== 9 29 98.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTCCACTCATCAAG # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 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 [0-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [11.7-63.3]%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 2 16790-17674 **** Predicted by CRISPRDetect 2.4 *** >NZ_AOXY01000018.1 Salmonella enterica subsp. enterica serovar Saintpaul str. JO2008 SEES2008_6, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 16790 29 100.0 33 ............................. TTGAGCACGACGAAATTTGGGTTTGATGCAGCC 16852 29 100.0 32 ............................. GTTATTCAGTTTATTAAATTTTTCCGCCAAGT 16913 29 100.0 32 ............................. CAACTGTATTTTGCGTTATTACGCTGAACCAG 16974 29 100.0 32 ............................. CCGAGGTCGGAGCGGATTGACTTAAACGGCAA 17035 29 100.0 32 ............................. TGCAACAGCAACAGGAGAGAATGCGGCAGCGT 17096 29 100.0 32 ............................. CGTCAGTTGCTGGAACTGGGGCACGATCTGGT 17157 29 100.0 32 ............................. GAGCGGCTAAACGATGAATTAACCAGGGAGCG 17218 29 100.0 32 ............................. GAGCGGCTAAACGATGAATTAACCAGGGAGCG 17279 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 17340 29 100.0 32 ............................. GAGACGCCAGATGAATTCTGCGGGACAAGAGA 17401 29 100.0 32 ............................. AACGCAGGAGAACCAGCCGCCGGTCCTCCTGC 17462 29 100.0 32 ............................. GTCTGACCAGTGGCGTGGGGGGATTGCAATTT 17523 29 100.0 32 ............................. CGTGGCTGGAGCAATGAACAGATTAAAGGGGT 17584 29 100.0 32 ............................. TCGCACAACGCCTGGATATCCGCCCATCGGCC 17645 29 96.6 0 ............T................ | A [17672] ========== ====== ====== ====== ============================= ================================= ================== 15 29 99.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCACTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 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 [0-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [71.7-48.3]%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], //