Array 1 8701-8852 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDII01000008.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM40, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 8701 29 100.0 32 ............................. CCCACCGCGCTGATTAACGACGGACTGTTACA 8762 29 96.6 32 ............................G TGAGCAACGACAGTAAATAATTTTTCGTGCTG 8823 28 79.3 0 ...................T.G.TT.T.- | TC [8843] Deletion [8851] ========== ====== ====== ====== ============================= ================================ ================== 3 29 92.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCT # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : CCCGCTGGCG # Questionable array : NO Score: 5.27 # Score Detail : 1:0, 2:3, 3:0, 4:0.60, 5:0, 6:0.25, 7:0.02, 8:0.4, 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 : GTGTTCCCCGCGCCAGCGGGGATAAACCT # 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 [0-9] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [71.7-3.3]%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 1 277-611 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDII01000142.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM40, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 277 28 89.7 32 ..T.........G.-.............. AACGAATTGAGACTATTAGAGATTATTCGCCT A,T [281,289] 339 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 400 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 461 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 522 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 583 29 89.7 0 A..........................AC | ========== ====== ====== ====== ============================= ================================ ================== 6 29 96.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TTCAGCCCTTGTCGACTGCGGAACGCCCCTCGGTTTATCCCCGCTGGCGCGGGGAACACGCGAAATAGTGGGGAAAAACCCCTGGTTAACCCGGTTTATCCCCGCTGGCGCGGGAAACACTAGGCCTTGATACCATCGCTCGCACCTCGTCACGGTTTATCCCCGCTGGCGCGGGGAACACGTTTATTACTGCTTAGTTAATTAATGGGTTGCCGGTTTATCCCCGCTGGCGCGGGGAACACAGGCGAATAATCTCTAATAGTCTCAATTCGTTCGG # Right flank : CGTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTC # Questionable array : NO Score: 6.06 # Score Detail : 1:0, 2:3, 3:0, 4:0.80, 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: R [5-4] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [50.0-48.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.24,0.41 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 1624-148 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDII01000362.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM40, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 1623 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 1562 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 1501 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 1440 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 1379 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 1318 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 1257 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 1195 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 1134 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 1073 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 1012 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 951 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 890 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 829 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 768 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 707 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 646 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 585 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 524 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 463 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 402 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 340 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 237 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 176 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ========================================================================== ================== 24 29 99.7 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : G # Right flank : GTTCTTGAATATGATTGCGGGTATATGTGGATAGTGTTCCCCGCGCCTTATTCGGTTTATCCCCGCTGGCGCGGGGAACACGCACCTCGAAACGGTTTTAAAACACTACCGTTTCGGTTTATCCCCGCTGGCGCGGGGAACACTGGAC # Questionable array : NO Score: 6.13 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 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: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [56.7-1.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.68,5.24 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 105-1597 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDII01000218.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM40, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 105 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 166 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 227 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 288 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 349 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 410 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 471 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 532 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 593 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 654 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 715 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 776 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 837 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 898 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 959 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 1020 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 1082 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 1143 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 1204 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 1265 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 1326 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 1387 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 1448 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 1509 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 1570 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : AATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGTG # 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], //