Array 1 97952-99932 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXBB01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO_STM0907 BCW_8409_1__paired__contig_1, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 97952 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 98013 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 98074 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 98135 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 98196 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 98257 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 98318 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 98379 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 98440 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 98501 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 98562 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 98623 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 98684 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 98745 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 98806 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 98867 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 98928 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 98989 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 99050 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 99111 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 99172 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 99233 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 99294 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 99355 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 99417 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 99478 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 99539 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 99600 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 99661 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 99722 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 99783 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 99844 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 99905 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 116065-117541 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXBB01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO_STM0907 BCW_8409_1__paired__contig_1, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 116065 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 116126 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 116187 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 116248 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 116310 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 116371 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 116432 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 116493 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 116554 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 116615 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 116676 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 116737 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 116798 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 116859 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 116920 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 116981 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 117043 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 117146 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 117207 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 117268 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 117329 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 117390 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 117451 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 117512 29 96.6 0 A............................ | A [117538] ========== ====== ====== ====== ============================= ========================================================================== ================== 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 [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], //