Array 1 1057-2838 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHFV01000019.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N44715 N44715_contig_19, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 1057 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 1118 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 1179 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 1240 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 1301 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 1363 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 1424 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 1485 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 1546 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 1607 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 1668 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 1729 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 1790 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 1851 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 1912 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 1973 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 2034 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 2095 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 2157 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 2260 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 2321 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 2382 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 2443 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 2504 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 2565 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 2626 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 2687 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 2748 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 2809 29 96.6 0 A............................ | A [2835] ========== ====== ====== ====== ============================= ========================================================================== ================== 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], // Array 1 88302-89794 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHFV01000043.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N44715 N44715_contig_43, 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], //