Array 1 4299-5913 **** Predicted by CRISPRDetect 2.4 *** >NZ_QDPL01000254.1 Salmonella enterica subsp. enterica serovar Typhimurium strain 133 NODE_254_length_6111_cov_0.797126, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 4299 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 4360 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 4421 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 4482 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 4543 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 4604 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 4665 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 4726 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 4787 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 4848 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 4909 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 4970 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 5031 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 5092 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 5153 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 5214 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 5275 29 100.0 32 ............................. CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 5336 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 5398 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 5459 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 5520 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 5581 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 5642 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 5703 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 5764 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 5825 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 5886 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 27 29 98.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCGGTTGGTCGAGGATG # 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 1 1092-2263 **** Predicted by CRISPRDetect 2.4 *** >NZ_QDPL01000099.1 Salmonella enterica subsp. enterica serovar Typhimurium strain 133 NODE_99_length_11753_cov_0.685188, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 1092 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 1153 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 1215 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 1276 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 1337 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 1398 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 1459 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 1520 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 1582 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 1685 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 1746 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 1807 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 1868 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 1929 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 1990 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 2051 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 2112 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 2173 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 2234 29 96.6 0 A............................ | A [2260] ========== ====== ====== ====== ============================= ========================================================================== ================== 19 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.09 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.14, 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], //