Array 1 98099-100262 **** Predicted by CRISPRDetect 2.4 *** >NZ_SIIA01000004.1 Salmonella enterica subsp. enterica serovar Typhimurium strain 3198 3198_4_length_282249_cov_64.6958, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 98099 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 98160 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 98221 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 98282 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 98343 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 98404 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 98465 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 98526 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 98587 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 98648 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 98709 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 98770 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 98831 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 98892 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 98953 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 99014 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 99075 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 99136 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 99197 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 99258 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 99319 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 99380 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 99441 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 99502 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 99563 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 99624 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 99685 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 99747 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 99808 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 99869 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 99930 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 99991 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 100052 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 100113 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 100174 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 100235 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 36 29 98.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 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 116395-117199 **** Predicted by CRISPRDetect 2.4 *** >NZ_SIIA01000004.1 Salmonella enterica subsp. enterica serovar Typhimurium strain 3198 3198_4_length_282249_cov_64.6958, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 116395 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 116456 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 116517 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 116578 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 116639 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 116701 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 116804 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 116865 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 116926 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 116987 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 117048 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 117109 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 117170 29 96.6 0 A............................ | A [117196] ========== ====== ====== ====== ============================= ========================================================================== ================== 13 29 99.5 36 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 5.99 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.23, 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], //