Array 1 219961-221453 **** Predicted by CRISPRDetect 2.4 *** >NZ_QBHF01000002.1 Salmonella enterica subsp. enterica serovar 4,[5],12:i:- strain F65H3 NODE_2_length_400253_cov_9.73897, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 219961 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 220022 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 220083 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 220144 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 220205 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 220266 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 220327 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 220388 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 220449 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 220510 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 220571 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 220632 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 220693 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 220754 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 220815 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 220876 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 220938 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 220999 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 221060 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 221121 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 221182 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 221243 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 221304 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 221365 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 221426 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 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 [0-10] 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 237585-239549 **** Predicted by CRISPRDetect 2.4 *** >NZ_QBHF01000002.1 Salmonella enterica subsp. enterica serovar 4,[5],12:i:- strain F65H3 NODE_2_length_400253_cov_9.73897, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 237585 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 237646 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 237707 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 237768 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 237829 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 237890 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 237951 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 238013 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 238074 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 238135 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 238196 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 238257 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 238318 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 238379 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 238440 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 238501 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 238562 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 238623 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 238684 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 238745 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 238806 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 238868 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 238971 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 239032 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 239093 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 239154 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 239215 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 239276 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 239337 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 239398 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 239459 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 239520 29 96.6 0 A............................ | A [239546] ========== ====== ====== ====== ============================= ========================================================================== ================== 32 29 99.6 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.08, 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 [1-3] 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], //