Array 1 1573318-1574461 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCKE01000008.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL03926 2014LSAL03926_8, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1573318 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 1573379 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 1573440 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 1573501 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 1573562 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 1573623 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 1573684 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 1573745 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 1573806 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 1573867 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 1573928 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 1573989 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 1574050 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 1574111 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 1574172 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 1574233 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 1574294 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 1574355 17 55.2 0 ................N------------ - Deletion [1574360] 1574372 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 1574433 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 20 29 97.6 30 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TCAGAGAGTAGTGCAGTTACAGCTTTTACGGGGATAAGTAATGTTTTAAATATTGTACCTTTTTCTTATTCTTTGAGACAAAACGGATTTGTTTTATCTGGTTTTAATGTGAGAATTCTCAGAAACGGATTGGGTAAAGTTGACATTGTTCCATTACAGGTCAACTTTGGGCATATTTATACGACTTATGAACCTTCACAGACCAGACAGGCAAATTTTACAGTGATCGCCAGGCAGGTTTTACGACCGGCTATGGGACAGGAATTCACGATCCCTCTGGCCATCACCTTCGGGAAAGGTGCACTGACACAGGATACCGGGCAAACTCTGAATCTTGTCAGCCTGGATGGCCCCAACAAAGGTCAGCCTAATGGGCTCCGGCTTTCAATAAAAGATGATAAAGGAAAAGAGATTACTTTTGATAAACAAGAAGTACTGGGGGATATTACTATTACAGGAGCTGTCACCGGTAATGTGTCGAAGGTATATACCCCTTTACA # Right flank : GATTTATTTCTGTGGATGGGGTTTCGATTCGATGTGTTCCCCGCGCCAGCATCTGCTGCCGCGCACCCGTGCGTATGCGGAGATCTGGCTCGATCAGGAGAAGGTCGCGACCACCGATGAAGAACCGATCCTCGGGCAGACCTATCTGCCGCGTAAATTTAAAACCACGGTGGTGATCCCGCCGCAAAATGATATCGATCTGCACGCCAACGACATGAACTTTGTGGCGATTGCCGAGAACGGCAAGCTGGTCGGCTTTAACCTGCTGGTGGGCGGCGGTCTGTCTATTGAGCATGGTAATAAGAAAACCTACGCTCGTACGGCCAGCGAGTTTGGCTATCTGCCGCTGGAGCACACCCTGGCGGTGGCCGAAGCGGTAGTGACGACGCAGCGCGACTGGGGTAACCGTACCGACAGGAAAAATGCCAAAACCAAATACACCCTTGAGCGCGTGGGACTGGAGACATTTAAAGCGGAAGNCCCTACGAGAGCAGCGATCT # Questionable array : NO Score: 5.99 # Score Detail : 1:0, 2:3, 3:0, 4:0.88, 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 [58.3-46.7]%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 2 1575357-1575751 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCKE01000008.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL03926 2014LSAL03926_8, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1575357 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 1575418 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 1575479 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 1575540 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 1575601 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 1575662 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 1575723 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 7 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTGGGGTAACCGTACCGACAGGAAAAATGCCAAAACCAAATACACCCTTGAGCGCGTGGGACTGGAGACATTTAAAGCGGAAGNCCCTACGAGAGCAGCGATCTGGAACGCATCATGACCGCGCGCAAGAAATATTTTACGACATCGGCGGAAAAACAAAGTGCAAAAGCCGCCAAAGCAAAGAAACAGGAGGCTGCTGAATGAGTGTTGTGACGAAAGATGATAAAGCCACTTTGCGTCAGTGGCATGAGGAACTACAAGAAAAACGTGGATTACGTGCCAGCTTACGACGTAGTAAAACGGTGAATGATGCCTGTTTGGCTGAGGGGCTTCATTCATTGTTAATGCAAACACATTCTTTATGGAAATACAAAGCACCCTGGAATGTTACTGCANATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTGACGAGGTGCGAGCGATGGTATCAAGGCCTAGTGTTTCCCGGTCATGTGAGTCACCTCTTGCTTGAGCGTTTACTCACTTAGTTGCGTGTCCACTATTGCTGAGTAAGATCAGAAGGTTAAAAATCAACAAAGGCTCAACGGCGTGCATTAGGCCCTGGTGATGAAGGTGGCATATGGGAGGATGTATATCCTACACTTTCATCCGGATGATGTAACAAAAATACAGGTATCGGTAATGAAACAATCATCACCGTTTAATAGAGGCCCATATATTGNGATTACAATAGAAAGAAATTATGACTGTAATCCTAAGTTGATAAATGAGAATGATGGTTGGCTGTATTATAAATATGAATTAACGGTATTTTCCATGGAGAATACCTCGTATGAATATCAGTATGAATTAGCGAATAAAATTATGAATGCTCTACGTGAGGCGGGATATCTGGCAGAATCAATTTGGTAATATACCGGTACCTATGTAACAGCATCGTCGC # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [71.7-45.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.51,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 3 1723061-1723881 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCKE01000008.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL03926 2014LSAL03926_8, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1723061 29 100.0 32 ............................. ACAACGCCGGGCCGGGGCGGGGGGCGGAAGCT 1723122 29 100.0 32 ............................. CCGCATCATTACTGACCTGAACGCCCCGCAAG 1723183 29 100.0 32 ............................. CCTGACAATTTGAAATACTCCGCTGAAATGAT 1723244 29 100.0 32 ............................. TCAACGGCCTGCCGGGTAAATCGGTTCACGTG 1723305 29 100.0 32 ............................. TTGACGAGCGGTGATGTGTGCCGGAGTGGATA 1723366 29 100.0 32 ............................. TGATATGAGGCAAACGGCAGGTTACGCGCCAG 1723427 29 100.0 32 ............................. TCTTTTTGCATCAGCGACCAGAGCCGCTTGTA 1723488 29 100.0 32 ............................. GAGTGAGAATGTTCTTCATAGCAGGGGCAAAC 1723549 29 100.0 32 ............................. ATGCGCGTAACGGTCATTATGTTAAATAGAAC 1723610 29 100.0 32 ............................. AACATCGTCGCCAGGCGTTTTTGCATGTCGTC 1723671 29 100.0 32 ............................. CCTCGCCGTCATTCGACATTACGTTCACTCAC 1723732 29 100.0 32 ............................. TAACCATCGTGACGTGTGAAGTTGCCGCCCAG 1723793 29 100.0 32 ............................. ATTTTAGAATTACGCATTGAGCCGATGATGTA 1723854 28 79.3 0 ...........C...A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 14 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATTGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTTATCCATTACCTTGCATTGTTTATTTTCTCTATGCGAATTTCGATGAGTGTATAAAAGCGCGGATAAATTTTTCCATAGCGATGCATGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTAGTGCTGATAAAAAGTGGTTTATAAACAATGATATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGGAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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 [0-6] 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 4 1740522-1741955 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCKE01000008.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL03926 2014LSAL03926_8, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================== ================== 1740522 29 100.0 33 ............................. CGAATATATATGATATCGAATAACGAAGCAAAG 1740583 29 100.0 33 ............................. CGCCTGATCCCGGTACTCCAGAGTATTTCCAGT 1740645 29 100.0 34 ............................. TCTAACACTCAAAGGTGGAATGACAGAGCCTTGT 1740706 29 100.0 30 ............................. TTTGCCACGCACCGCAAACAGGCAGTCTTC 1740767 29 100.0 33 ............................. CACGCCGCCATCACTGACAGCACAAAAACAAAG 1740828 29 100.0 28 ............................. CTGATTGACATGACGTCCGGCGACGACT 1740889 29 100.0 32 ............................. GTCTATAACCGTCGCCTCACGACTCGGCATGT 1740950 29 100.0 32 ............................. CGCCCGGAATCAGCGCCGTCTATTGAGGGGTT 1741011 29 100.0 32 ............................. AACGATATCACCGTACTGGCGAAAACGCTGCG 1741072 29 100.0 28 ............................. CCCGATAATTCTATATCGGGCATTGATT 1741133 29 100.0 32 ............................. ACTGGCAGCACATAACCGGTTCGGACGCAGCC 1741194 29 100.0 33 ............................. AGATTGAGCGCCGCACTAACCAGCGCATGATCG 1741255 29 100.0 32 ............................. GTTGGCAGCATGATCGCTAAATCTAAAATGCC 1741316 29 100.0 32 ............................. GCTGCGTTCAACAACGGGGAAATGCCGGAGAA 1741377 29 100.0 32 ............................. GAGAGGCCGACTCAGCAACCAAAAAAGGGAAG 1741438 29 100.0 32 ............................. AACGCGCAGCGCAGCAAAAAGCCGAGCTGGAG 1741499 29 96.6 32 .............T............... CTGTTAACAGGGGGAATGCTGAAGCAGCGAAA 1741560 29 96.6 32 .............T............... CGTGACTACTGCAACTTAAATCACGACGAAAT 1741621 29 96.6 32 .............T............... TCTCTGCCGCTACCGCGCTGGACTGCGCCGCC 1741682 29 100.0 32 ............................. AGTAATCAACTCAATGCGCTCACAACGCAATG 1741743 29 100.0 32 ............................. CCAGATCGCGCAAATCGCTGCGAGTATTCAGG 1741804 29 96.6 32 ............T................ TCCACGTCGCCCGCCATCAGGTTCGCCAGCTC 1741865 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 1741926 29 93.1 0 A...........T................ | A [1741952] ========== ====== ====== ====== ============================= ================================== ================== 24 29 99.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTAGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTAGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAATAAAAAAGGGCTTTTAGAACAAATACATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGAACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 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 [0-4] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-50.0]%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], //