Array 1 1-147 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHFC01000033.1 Salmonella enterica subsp. enterica serovar Hadar strain CVM N44694 N44694_contig_33, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1 26 89.7 32 ---.......................... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 59 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 120 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 3 29 90.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTGATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCGATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGGAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 5.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.54, 5:0, 6:0.25, 7:0.02, 8:0.4, 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 [5,3] 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 [-3.90,-2.30] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-5] 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], // Array 2 16829-18382 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHFC01000033.1 Salmonella enterica subsp. enterica serovar Hadar strain CVM N44694 N44694_contig_33, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 16829 29 100.0 32 ............................. CGCCCCCCGCATACAGCGAGAGACGGGCCATG 16890 29 100.0 32 ............................. CGCCGGGCGCGGGAGTCCCGGGCGATCCTCCC 16951 29 100.0 32 ............................. GCCCGAAATCAACTTGCAACATTTCAGTTGGC 17012 29 100.0 32 ............................. CATATGATTGACGACAATGAATTTTTTTTCAA 17073 29 100.0 32 ............................. ATAGTTCATCTCTGTTCTCCAGCGGTTTCTAT 17134 29 100.0 32 ............................. ACGGCATTATCACGGCTATTTCTCTGGAAATG 17195 29 100.0 32 ............................. GACAGGACTTACGACCGGCTGGACTACGCATC 17256 29 100.0 32 ............................. CCACAGCCGCCGCGACAATAAATTAACTCACT 17317 29 100.0 32 ............................. GCTGAGATAATTGCCGATCATCTTGAAGACAT 17378 29 100.0 32 ............................. AATGATGAGGGGCTGGCAACGTTTAGCGCCAC 17439 29 100.0 32 ............................. CTGGCCACTCAACAGGGAAATATCGCGTGCGC 17500 29 96.6 32 A............................ CCCATCAAGATAAACATCATAGCGAGCACCTG 17561 29 100.0 32 ............................. TTTGAAATCGCTATTCTTATTGCTGTAGCAGT 17622 29 100.0 32 ............................. CGTTAACTAAAACGAACAAAACAGGGAAATCA 17683 29 100.0 33 ............................. GCCGTGCGTCAGATCACCCCAAACGCTTTCTTT 17745 29 100.0 33 ............................. GCATTAGATTGCGTTGACGGTCACGTTCTTATC 17807 29 100.0 32 ............................. CGCCTCACTGATATTCTGCGGCGAGCTGAAAA 17868 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 17929 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 17990 29 100.0 32 ............................. GAGACGCCAGATGAATTCTGCGGGACAAGAGA 18051 29 100.0 32 ............................. AACGCAGGAGAACCAGCCGCCGGTCATCCTGC 18112 29 100.0 32 ............................. GTCTGACCAGTGGCGTGGGGGGATTGCAATTT 18173 29 100.0 32 ............................. CGTGGCTGGAGCAATGAACAGATTAAAGGGGT 18234 29 100.0 32 ............................. AAGCCATTGACGCAACGGAAAACGCCAATGCT 18295 29 96.6 32 .................A........... GTATGATTTGGACATAGCTAATGATGTAAAGT 18356 27 93.1 0 ...........................-- | ========== ====== ====== ====== ============================= ================================= ================== 26 29 99.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCACAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAAGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : | # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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 [70.0-0.0]%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 1054-49 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHFC01000038.1 Salmonella enterica subsp. enterica serovar Hadar strain CVM N44694 N44694_contig_38, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1053 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 992 29 100.0 32 ............................. AATGGGATGTTCTCGATAATGGCGACGACGAA 931 29 100.0 32 ............................. CGGTCATTTTAAAGAATCCCGTTAAACAACAC 870 29 100.0 32 ............................. GACATTTCAGTTTTGAGCATGAACCTGATTCA 809 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGTTGTTTAGTTCCT 748 29 100.0 32 ............................. AAAACCGTACAACAGACAAAATATAAATATTG 687 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 626 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 565 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 504 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 443 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 382 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 321 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 260 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 199 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 138 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 77 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 17 29 99.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCAGCGGGGATAAACCGCGTCAGCGCGGTATTGAGGCCGGGGACCGCC # Right flank : GTTGATCGAGAGTGCGAAGAGGCAGAACGGGCAGTGTTCCCCGCGCCAG # 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: 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 [4-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [30.0-23.3]%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 1 579-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHFC01000005.1 Salmonella enterica subsp. enterica serovar Hadar strain CVM N44694 N44694_contig_5, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 578 29 100.0 32 ............................. AACTTAACTCCAGCATTCTGGCAATTGTTGCG 517 29 100.0 32 ............................. GCGACATCAAAATCTATTTTTCATTCTATCTG 456 29 100.0 32 ............................. CAATGTTTCATGCTACGCAAGAGACCAGAACG 395 29 100.0 32 ............................. TGGTGGAGTGCCGAACCGCTACCGTTTCAAAG 334 29 100.0 32 ............................. TCATGGCGTCATTCGGTACTGATATGCCAATG 273 29 100.0 32 ............................. TCGTTTGTAGCCGAAAACCGGCTGGCGCTGAT 212 29 100.0 32 ............................. TAATGAATCGCCTTTCTAAAATGAAAGACGAC 151 29 100.0 32 ............................. GCATCGAACCGCTTATCCGTCTGTACCCACTC 90 29 100.0 32 ............................. CTTTCATTGCGCAGGGTATGCAGTCGGTTTCC 29 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 10 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATTGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTCCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : G # 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: NA [0.0-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.24 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //