Array 1 108833-108254 **** Predicted by CRISPRDetect 2.4 *** >NZ_ALPP01000014.1 Salmonella enterica subsp. enterica serovar Hadar str. 2011K-0112 contig00014, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 108832 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 108771 29 100.0 32 ............................. GAGACGCCAGATGAATTCTGCGGGACAAGAGA 108710 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 108649 29 100.0 32 ............................. GAGACGCCAGATGAATTCTGCGGGACAAGAGA 108588 29 100.0 32 ............................. AACGCAGGAGAACCAGCCGCCGGTCATCCTGC 108527 29 100.0 32 ............................. GTCTGACCAGTGGCGTGGGGGGATTGCAATTT 108466 29 100.0 32 ............................. CGTGGCTGGAGCAATGAACAGATTAAAGGGGT 108405 29 100.0 32 ............................. AAGCCATTGACGCAACGGAAAACGCCAATGCT 108344 29 96.6 32 .................A........... GTATGATTTGGACATAGCTAATGATGTAAAGT 108283 29 100.0 0 ............................. | A [108256] ========== ====== ====== ====== ============================= ================================ ================== 10 29 99.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GGAAAACTATCTCTATCGCAGGCTGGATA # Right flank : TTTCAACAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCTGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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: 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 [2-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [51.7-28.3]%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 1 597-18 **** Predicted by CRISPRDetect 2.4 *** >NZ_ALPP01000003.1 Salmonella enterica subsp. enterica serovar Hadar str. 2011K-0112 contig00003, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 596 29 100.0 32 ............................. AACTTAACTCCAGCATTCTGGCAATTGTTGCG 535 29 100.0 32 ............................. GCGACATCAAAATCTATTTTTCATTCTATCTG 474 29 100.0 32 ............................. CAATGTTTCATGCTACGCAAGAGACCAGAACG 413 29 100.0 32 ............................. TGGTGGAGTGCCGAACCGCTACCGTTTCAAAG 352 29 100.0 32 ............................. TCATGGCGTCATTCGGTACTGATATGCCAATG 291 29 100.0 33 ............................. TCGTTTGTAGCCGAAAAACCGGCTGGCGCTGAT 229 29 100.0 32 ............................. TAATGAATCGCCTTTCTAAAATGAAAGACGAC 168 29 100.0 32 ............................. GCATCGAACCGCTTATCCGTCTGTACCCACTC 107 29 100.0 32 ............................. CTTTCATTGCGCAGGGTATGCAGTCGGTTTCC 46 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 10 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATTGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTCCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GCGTCAGCGCGGTATTGA # 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: 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 [11.7-70.0]%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 41-801 **** Predicted by CRISPRDetect 2.4 *** >NZ_ALPP01000028.1 Salmonella enterica subsp. enterica serovar Hadar str. 2011K-0112 contig00028, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 41 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 102 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 163 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 224 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 285 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 346 29 96.6 33 .........................G... CGTCACTTTCTGACATTTTTATTCAGTTCGTTA 408 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 469 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 530 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 591 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 652 29 100.0 32 ............................. GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 713 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 774 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 13 29 97.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : ATAAACCGCGGAGGATGGAATATTTCCGAGGCTGGCGATTG # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTGATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCGATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGGAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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: 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 [1-7] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [33.3-63.3]%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 17483-18062 **** Predicted by CRISPRDetect 2.4 *** >NZ_ALPP01000028.1 Salmonella enterica subsp. enterica serovar Hadar str. 2011K-0112 contig00028, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 17483 29 100.0 32 ............................. CGACGCTTCCATCGTCTGGCATTCCTGTTCGT 17544 29 100.0 32 ............................. CCCGCGTATTAACAACGACGAGCAGGGCGTGC 17605 29 100.0 32 ............................. GTTGCGCAGCCATTGAGCTGCAAACGGATCAA 17666 29 100.0 33 ............................. CGCCCCCCCGCATACAGCGAGAGACGGGCCATG 17728 29 100.0 32 ............................. CGCCGGGCGCGGGAGTCCCGGGCGATCCTCCC 17789 29 100.0 32 ............................. GCCCGAAATCAACTTGCAACATTTCAGTTGGC 17850 29 100.0 32 ............................. CATATGATTGACGACAATGAATTTTTTTTCAA 17911 29 100.0 32 ............................. ATAGTTCATCTCTGTTCTCCAGCGGTTTCTAT 17972 29 100.0 32 ............................. ACGGCATTATCACGGCTATTTCTCTGGAAATG 18033 29 100.0 0 ............................. | C [18038] ========== ====== ====== ====== ============================= ================================= ================== 10 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCACAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAAGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : GACAGGACTTACGACCGGC # 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: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-11.7]%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], //