Array 1 114729-116282 **** Predicted by CRISPRDetect 2.4 *** >NZ_VHLQ01000005.1 Salmonella enterica subsp. enterica serovar Typhimurium strain RS9 scaffold5_size240029, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 114729 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 114790 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 114851 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 114912 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 114973 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 115034 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 115095 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 115156 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 115217 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 115278 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 115339 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 115400 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 115461 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 115522 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 115583 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 115644 29 100.0 32 ............................. CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 115705 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 115767 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 115828 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 115889 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 115950 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 116011 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 116072 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 116133 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAATGA 116194 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 116255 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 26 29 98.3 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 132415-133891 **** Predicted by CRISPRDetect 2.4 *** >NZ_VHLQ01000005.1 Salmonella enterica subsp. enterica serovar Typhimurium strain RS9 scaffold5_size240029, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 132415 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 132476 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 132538 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 132599 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 132660 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 132721 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 132782 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 132843 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 132904 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 132965 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 133026 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 133087 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 133148 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 133210 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 133313 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 133374 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 133435 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 133496 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 133557 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 133618 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 133679 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 133740 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 133801 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 133862 29 96.6 0 A............................ | A [133888] ========== ====== ====== ====== ============================= ========================================================================== ================== 24 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCGTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # 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 [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], //