Array 1 94579-96436 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHJE01000003.1 Salmonella enterica subsp. enterica serovar Hadar strain CVM N46859 N46859_contig_3, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 94579 29 100.0 32 ............................. AACTTAACTCCAGCATTCTGGCAATTGTTGCG 94640 29 100.0 32 ............................. GCGACATCAAAATCTATTTTTCATTCTATCTG 94701 29 100.0 32 ............................. CTCCAGCCACATTGCGGCGCGACCGCTTTTAA 94762 29 100.0 32 ............................. CAATGTTTCATGCTACGCAAGAGACCAGAACG 94823 29 100.0 32 ............................. TGGTGGAGTGCCGAACCGCTACCGTTTCAAAG 94884 29 100.0 32 ............................. TCATGGCGTCATTCGGTACTGATATGCCAATG 94945 29 100.0 32 ............................. TCGTTTGTAGCCGAAAACCGGCTGGCGCTGAT 95006 29 100.0 32 ............................. TAATGAATCGCCTTTCTAAAATGAAAGACGAC 95067 29 100.0 32 ............................. GCATCGAACCGCTTATCCGTCTGTACCCACTC 95128 29 100.0 32 ............................. CTTTCATTGCGCAGGGTATGCAGTCGGTTTCC 95189 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 95250 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 95311 29 100.0 32 ............................. AATGGGATGTTCTCGATAATGGCGACGACGAA 95372 29 100.0 32 ............................. CGGTCATTTTAAAGAATCCCGTTAAACAACAC 95433 29 100.0 32 ............................. GACATTTCAGTTTTGAGCATGAACCTGATTCA 95494 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGTTGTTTAGTTCCT 95555 29 100.0 32 ............................. AAAACCGTACAACAGACAAAATATAAATATTG 95616 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 95677 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 95738 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 95799 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 95860 29 100.0 32 ............................. CCAGCTTACACTATTTACGACGTTATTGAGCA 95921 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 95982 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 96043 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 96104 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 96165 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 96226 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 96287 29 100.0 32 ............................. GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 96348 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 96409 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 31 29 98.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATTGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTCCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTGATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCGATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGGAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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 [0-9] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-63.3]%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 2 113118-114490 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHJE01000003.1 Salmonella enterica subsp. enterica serovar Hadar strain CVM N46859 N46859_contig_3, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 113118 29 100.0 32 ............................. CGACGCTTCCATCGTCTGGCATTCCTGTTCGT 113179 29 100.0 32 ............................. CCCGCGTATTAACAACGACGAGCAGGGCGTGC 113240 29 100.0 32 ............................. GTTGCGCAGCCATTGAGCTGCAAACGGATCAA 113301 29 100.0 32 ............................. CGCCCCCCGCATACAGCGAGAGACGGGCCATG 113362 29 100.0 32 ............................. CGCCGGGCGCGGGAGTCCCGGGCGATCCTCCC 113423 29 100.0 32 ............................. GCCCGAAATCAACTTGCAACATTTCAGTTGGC 113484 29 100.0 32 ............................. CATATGATTGACGACAATGAATTTTTTTTCAA 113545 29 100.0 32 ............................. ATAGTTCATCTCTGTTCTCCAGCGGTTTCTAT 113606 29 100.0 32 ............................. ACGGCATTATCACGGCTATTTCTCTGGAAATG 113667 29 100.0 32 ............................. GACAGGACTTACGACCGGCTGGACTACGCATC 113728 29 100.0 32 ............................. CCACAGCCGCCGCGACAATAAATTAACTCACT 113789 29 100.0 32 ............................. GCTGAGATAATTGCCGATCATCTTGAAGACAT 113850 29 100.0 32 ............................. AATGATGAGGGGCTGGCAACGTTTAGCGCCAC 113911 29 100.0 32 ............................. CTGGCCACTCAACAGGGAAATATCGCGTGCGC 113972 29 96.6 32 A............................ CCCATCAAGATAAACATCATAGCGAGCACCTG 114033 29 100.0 32 ............................. TTTGAAATCGCTATTCTTATTGCTGTAGCAGT 114094 29 100.0 32 ............................. CGTTAACTAAAACGAACAAAACAGGGAAATCA 114155 29 100.0 33 ............................. GCCGTGCGTCAGATCACCCCAAACGCTTTCTTT 114217 29 100.0 33 ............................. GCATTAGATTGCGTTGACGGTCACGTTCTTATC 114279 29 100.0 32 ............................. CGCCTCACTGATATTCTGCGGCGAGCTGAAAA 114340 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 114401 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 114462 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 23 29 99.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCACAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAAGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : CGTGGCTGGAGCAATGAACAGATTAAAGGGGTGTGT # 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 [70.0-30.0]%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], // Array 1 108384-108174 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHJE01000041.1 Salmonella enterica subsp. enterica serovar Hadar strain CVM N46859 N46859_contig_41, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 108383 27 93.1 32 --........................... CGTGGCTGGAGCAATGAACAGATTAAAGGGGT 108324 29 100.0 32 ............................. AAGCCATTGACGCAACGGAAAACGCCAATGCT 108263 29 96.6 32 .................A........... GTATGATTTGGACATAGCTAATGATGTAAAGT 108202 29 93.1 0 ...........................AC | ========== ====== ====== ====== ============================= ================================ ================== 4 29 95.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : GTTTCAACAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCTGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 3.84 # Score Detail : 1:0, 2:3, 3:0, 4:0.79, 5:-1.5, 6:0.25, 7:0.01, 8:0.6, 9:0.69, # 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 [3,5] 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 [-5.60,-7.20] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [51.7-0.0]%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], //