Array 1 97901-99881 **** Predicted by CRISPRDetect 2.4 *** >NZ_MWQW01000011.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO STM0928 BCW_8442_1__paired__contig_11, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 97901 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 97962 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 98023 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 98084 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 98145 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 98206 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 98267 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 98328 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 98389 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 98450 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 98511 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 98572 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 98633 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 98694 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 98755 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 98816 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 98877 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 98938 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 98999 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 99060 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 99121 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 99182 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 99243 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 99304 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 99366 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 99427 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 99488 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 99549 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 99610 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 99671 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 99732 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 99793 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 99854 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 116014-117483 **** Predicted by CRISPRDetect 2.4 *** >NZ_MWQW01000011.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO STM0928 BCW_8442_1__paired__contig_11, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================================================================== ================== 116014 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 116075 29 69.0 86 ....................NNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCGCCAGCGGGGATAAACCGCAACCAGGCTGGATCGTAACTCCTATCCCCTC 116190 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 116252 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 116313 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 116374 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 116435 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 116496 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 116557 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 116618 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 116679 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 116740 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 116801 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 116862 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 116923 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 116985 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 117088 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 117149 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 117210 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 117271 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 117332 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 117393 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 117454 29 96.6 0 A............................ | A [117480] ========== ====== ====== ====== ============================= ====================================================================================== ================== 23 29 98.2 36 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 5.86 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 5:0, 6:0.25, 7:-0.30, 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: R [9-3] 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 [5.51,0.41 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //