Array 1 97967-99947 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZNR01000010.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO_STM1796 BCW_8416_1__paired__contig_10, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 97967 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 98028 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 98089 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 98150 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 98211 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 98272 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 98333 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 98394 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 98455 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 98516 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 98577 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 98638 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 98699 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 98760 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 98821 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 98882 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 98943 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 99004 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 99065 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 99126 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 99187 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 99248 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 99309 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 99370 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 99432 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 99493 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 99554 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 99615 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 99676 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 99737 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 99798 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 99859 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 99920 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 33 29 98.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGAGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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 [0-12] 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 116080-117495 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZNR01000010.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO_STM1796 BCW_8416_1__paired__contig_10, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 116080 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 116141 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 116202 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 116264 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 116325 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 116386 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 116447 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 116508 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 116569 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 116630 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 116691 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 116752 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 116813 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 116874 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 116935 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 116997 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 117100 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 117161 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 117222 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 117283 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 117344 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 117405 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 117466 29 96.6 0 A............................ | A [117492] ========== ====== ====== ====== ============================= ========================================================================== ================== 23 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 [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], //