Array 1 97904-99884 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZXY01000009.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO STM3662 BCW_7504_1__paired__contig_9, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 97904 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 97965 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 98026 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 98087 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 98148 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 98209 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 98270 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 98331 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 98392 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 98453 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 98514 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 98575 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 98636 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 98697 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 98758 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 98819 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 98880 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 98941 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 99002 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 99063 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 99124 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 99185 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 99246 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 99307 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 99369 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 99430 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 99491 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 99552 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 99613 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 99674 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 99735 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 99796 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 99857 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 116017-117493 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZXY01000009.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO STM3662 BCW_7504_1__paired__contig_9, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 116017 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 116078 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 116139 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 116200 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 116262 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 116323 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 116384 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 116445 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 116506 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 116567 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 116628 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 116689 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 116750 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 116811 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 116872 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 116933 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 116995 29 100.0 32 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATT 117056 29 65.5 13 ..............GA..C.TTCC.G.GC ACGTTACTCGATC Deletion [117098] 117098 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 117159 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 117220 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 117281 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 117342 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 117403 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 117464 29 96.6 0 A............................ | A [117490] ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.10 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 5:0, 6:0.25, 7:-0.06, 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 [0-13] 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], //