Array 1 88302-89794 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHOH01000018.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N51301 N51301_contig_18, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 88302 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 88363 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 88424 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 88485 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 88546 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 88607 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 88668 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 88729 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 88790 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 88851 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 88912 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 88973 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 89034 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 89095 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 89156 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 89217 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 89279 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 89340 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 89401 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 89462 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 89523 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 89584 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 89645 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 89706 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 89767 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 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 [0-10] 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 105927-107402 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHOH01000018.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N51301 N51301_contig_18, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 105927 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 105988 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 106049 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 106110 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 106171 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 106232 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 106293 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 106354 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 106415 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 106476 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 106537 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 106598 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 106659 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 106721 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 106824 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 106885 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 106946 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 107007 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 107068 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 107129 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 107190 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 107251 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 107312 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 107373 29 96.6 0 A............................ | A [107399] ========== ====== ====== ====== ============================= ========================================================================== ================== 24 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.12 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.11, 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 [1-3] 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], //