Array 1 162939-160974 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDIO01000024.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM87, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 162938 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 162877 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 162816 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 162755 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 162694 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 162633 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 162572 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 162510 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 162449 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 162388 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 162327 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 162266 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 162205 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 162144 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 162083 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 162022 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 161961 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 161900 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 161839 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 161778 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 161717 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 161655 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 161552 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 161491 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 161430 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 161369 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 161308 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 161247 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 161186 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 161125 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 161064 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 161003 29 96.6 0 A............................ | A [160976] ========== ====== ====== ====== ============================= ========================================================================== ================== 32 29 99.6 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : ATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAG # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.08, 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 [3-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 235-23 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDIO01000027.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM87, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 234 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 173 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 112 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 51 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 4 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GCAACCAGGCTGGATCGTAACTC # Questionable array : NO Score: 5.82 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 5:0, 6:0.25, 7:0.01, 8:0.6, 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: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [16.7-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.41,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 17859-16366 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDIO01000027.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM87, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 17858 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 17797 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 17736 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 17675 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 17614 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 17553 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 17492 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 17431 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 17370 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 17309 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 17248 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 17187 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 17126 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 17065 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 17004 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 16943 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 16881 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 16820 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 16759 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 16698 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 16637 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 16576 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 16515 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 16454 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 16393 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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: 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 [9-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-70.0]%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], //