Array 1 97953-99933 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXBA01000011.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO_STM0233 BCW_8406_1__paired__contig_11, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 97953 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 98014 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 98075 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 98136 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 98197 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 98258 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 98319 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 98380 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 98441 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 98502 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 98563 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 98624 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 98685 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 98746 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 98807 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 98868 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 98929 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 98990 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 99051 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 99112 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 99173 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 99234 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 99295 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 99356 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 99418 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 99479 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 99540 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 99601 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 99662 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 99723 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 99784 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 99845 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 99906 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 116066-117542 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXBA01000011.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO_STM0233 BCW_8406_1__paired__contig_11, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 116066 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 116127 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 116188 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 116249 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 116311 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 116372 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 116433 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 116494 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 116555 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 116616 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 116677 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 116738 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 116799 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 116860 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 116921 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 116982 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 117044 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 117147 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 117208 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 117269 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 117330 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 117391 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 117452 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 117513 29 96.6 0 A............................ | A [117539] ========== ====== ====== ====== ============================= ========================================================================== ================== 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], //