Array 1 1103-2212 **** Predicted by CRISPRDetect 2.4 *** >NZ_AYUQ01000140.1 Salmonella enterica subsp. enterica serovar Give var. 15 str. CFSAN004343 NODE_97_length_27670_cov_21.089880, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 1103 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 1164 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 1225 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 1286 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 1347 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 1408 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 1469 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 1530 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 1591 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 1652 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 1714 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 1817 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 1878 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 1939 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 2000 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 2061 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 2122 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 2183 29 96.6 0 A............................ | A [2209] ========== ====== ====== ====== ============================= ========================================================================== ================== 18 29 99.4 35 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGTGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.07 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.15, 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], // Array 1 98129-100353 **** Predicted by CRISPRDetect 2.4 *** >NZ_AYUQ01000065.1 Salmonella enterica subsp. enterica serovar Give var. 15 str. CFSAN004343 NODE_22_length_115286_cov_22.586151, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 98129 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 98190 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 98251 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 98312 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 98373 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 98434 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 98495 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 98556 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 98617 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 98678 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 98739 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 98800 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 98861 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 98922 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 98983 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 99044 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 99105 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 99166 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 99227 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 99288 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 99349 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 99410 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 99471 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 99532 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 99593 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 99654 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 99715 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 99777 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 99838 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 99899 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 99960 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 100021 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 100082 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 100143 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 100204 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 100265 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 100326 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 37 29 98.7 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 [0-11] 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], //