Array 1 90958-92571 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHHK01000049.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N45950 N45950_contig_49, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 90958 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 91019 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 91080 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 91141 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 91202 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 91263 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 91324 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 91385 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 91446 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 91507 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 91568 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 91629 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 91690 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 91751 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 91812 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 91873 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 91935 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 91996 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 92057 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 92118 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 92179 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 92240 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 92301 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 92362 29 100.0 32 ............................. TCCTTTTATTCTAATGGGTTAGATAGGGTAGA 92423 29 100.0 32 ............................. AAAACTGCACCGCCGCTGCCACTGAGTTTGCT 92484 29 100.0 32 ............................. AAAACTGCACCGCCGCTGCCACTGAGTTTGCT 92545 27 93.1 0 ...........................-- | ========== ====== ====== ====== ============================= ================================= ================== 27 29 98.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : | # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 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 [1-5] 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 16209-17990 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHHK01000014.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N45950 N45950_contig_14, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 16209 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 16270 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 16331 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 16392 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 16453 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 16515 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 16576 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 16637 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 16698 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 16759 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 16820 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 16881 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 16942 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 17003 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 17064 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 17125 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 17186 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 17247 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 17309 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 17412 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 17473 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 17534 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 17595 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 17656 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 17717 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 17778 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 17839 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 17900 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 17961 29 96.6 0 A............................ | A [17987] ========== ====== ====== ====== ============================= ========================================================================== ================== 29 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.14 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.09, 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 [0-3] 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], //