Array 1 1050261-1052059 **** Predicted by CRISPRDetect 2.4 *** >NZ_LS483465.1 Salmonella enterica subsp. enterica serovar Senftenberg strain NCTC10080 chromosome 1, complete sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1050261 29 100.0 32 ............................. TTCAGCACCGGACGGGCCAGCATACGACTCAC 1050322 29 100.0 32 ............................. ACCAGCAGACCAACCATTAACCCTGTAAAGGC 1050383 29 100.0 32 ............................. AAATCCCCTAAAGGCATAGCCATCGCCGATCG 1050444 29 100.0 32 ............................. GCGTAGCCTTCGCTGCAGCGAATCCGACTCAC 1050505 29 100.0 32 ............................. GGCATTGACCCATTCGACCCTCCGGAAAACGC 1050566 29 100.0 32 ............................. GCAATTCCGGGCTGGCGTCGCTGGACACGCGC 1050627 29 100.0 32 ............................. GCTGGCTGCGCGATTGCCCTGGGTGAATTCGT 1050688 29 100.0 32 ............................. CGATCGACCTTAAAAGCATATTCAGGCTTCAA 1050749 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 1050810 29 100.0 32 ............................. ACGATTTGCGTGGCACGCTGCGCACATTAATC 1050871 29 100.0 32 ............................. GAGATAAATAAGGTGATAGAAAAAACAAAATA 1050932 29 100.0 32 ............................. TCAGACAGTAAACCTCACGGCCTGACCGGGAG 1050993 29 100.0 32 ............................. TTTTAAATCACCACTGTATTTGCTAGCCATCC 1051054 29 100.0 32 ............................. CAAAAAGTAACTCCGGCCCCGAATATACGGGG 1051115 29 96.6 32 ............................A TCACGATATGAATATGGGGCTTACGTGCAACC 1051176 29 100.0 32 ............................. CGCTGCGAGGCCGTGACCATGTTTTCAGTACC 1051237 29 100.0 33 ............................. GTGTTGCAAAAGGAGCTGGCCGGTACTGATGAC 1051299 29 100.0 32 ............................. GGCTGACAAAATCTGCCGTCGTCTTTCTTCGC 1051360 29 100.0 32 ............................. GGCGCTGTATTAACCCACCGGTACTACAACAG 1051421 29 100.0 32 ............................. CCATTTGCTCGCCGTTCCGGCCGAGTTCTGAG 1051482 29 100.0 32 ............................. AGACAGGTTTTAGTATTTAGTGACCGGGTGCA 1051543 29 100.0 32 ............................. GTGAGCGAATTATCAGTAGTTTCATTGGTGTT 1051604 29 100.0 32 ............................. GCGCTGGACGTAACCGAAACGGGATTAAAGCA 1051665 29 100.0 32 ............................. CTGGGGATCTGCATGGACTCCCGCACGTTGCG 1051726 29 100.0 32 ............................. TTGTCAAACGTGGGAGCAAGTTGCCCGGAAAC 1051787 29 100.0 33 ............................. TTTTTCGATGCGTTCACGCTCCAGACGTTCGGC 1051849 29 100.0 32 ............................. GAGGCGCGCACGGAGGCTGTGCCGCTACGTGA 1051910 29 100.0 32 ............................. GGTTTCTGAACTACTCATCTGCCATTCGTGAG 1051971 29 100.0 32 ............................. TCCGGGAGCGTGATTACCTGCCCAGCGGGAAA 1052032 28 89.7 0 ............T..........-.G... | ========== ====== ====== ====== ============================= ================================= ================== 30 29 99.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGTTTGTCGATGCAAACACATAAATATTTAAATATCGCCTGATGCATTACTAATCCTAGGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCGATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGAGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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 [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [71.7-63.3]%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 1068309-1069619 **** Predicted by CRISPRDetect 2.4 *** >NZ_LS483465.1 Salmonella enterica subsp. enterica serovar Senftenberg strain NCTC10080 chromosome 1, complete sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1068309 29 96.6 32 ...........................T. TCTATGTATTCATCAAAAAGTTCTTTTATCGT 1068370 29 96.6 33 ...........................T. ACGTTGGTGATACGGAATAGTGGCAATAAAATC 1068432 29 96.6 32 ...........................T. ACCAATAACAAACTAACAGGTGTAGAGCACAA 1068493 29 96.6 32 ...........................T. ATTGTGTTGTCGCCGCTAGTGGCTTGGGTTAA 1068554 29 100.0 32 ............................. ACCAATAACAAACTAACAGACGATCGCATCAA 1068615 29 100.0 32 ............................. GTGAGATTAAAACGGGCTAACTATTTGTGAGA 1068676 29 100.0 32 ............................. GCGCTTTTCAGTGACAAAAATGCCTGGAAACT 1068737 29 100.0 32 ............................. CGCACTGACGGCGGGTTAGCTCGCCACTTGAT 1068798 29 100.0 32 ............................. CGTGATTACGGCAAGGTGCATACGTCCTTTTG 1068859 29 100.0 32 ............................. AAATTGCTCGAAATTGTCGCCTATTGGGAAAT 1068920 29 100.0 32 ............................. CCGTCGCCGAAATTATTCAGCCTGGACATGAG 1068981 29 100.0 32 ............................. TTGACGAATCAGACCGACTCGCACGTTTACCT 1069042 29 100.0 32 ............................. TGAACGCGCTACCTACAATATTTCCACGGTCT 1069103 29 100.0 32 ............................. ATTTTTTGATGAGCAATCTTGACAAAATTAAT 1069164 29 100.0 32 ............................. ATGATTACTATCGCCTGAAGGTGAACGAGTTA 1069225 29 100.0 32 ............................. CCATCAGTGATAAATGCTGCAATCGCAGTTTT 1069286 29 100.0 32 ............................. CATTCGAGAGCAAAACCGCTGACTAAACTTGG 1069347 29 100.0 32 ............................. GATTAACAGTAAACCCGGGGTCTTCTATTCCA 1069408 29 100.0 32 ............................. GATACATCTGATAATCCCAGGGATTTCGCTAA 1069469 29 100.0 32 ............................. ACTAATACACTGACAATTGACGCAATCCGCGC 1069530 29 100.0 32 ............................. ACTAATACACTGACAATTGACGCAATCCGCGC 1069591 29 93.1 0 ...........................AC | ========== ====== ====== ====== ============================= ================================= ================== 22 29 99.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCGCCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCCTTGGGGGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGTCGCCTTGCCGTCTGGTTACTGGAGATTCGGGCCGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAGATGATTTGGCAACAAATCACGCAGCTTGGCGGTTGCGGGAATGCCGTCATGGCCTGGGCGACCAACACGGAATCAGGATTTGAGTTCCAGACATGGGGTGAAAACCGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGATAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : CGTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTC # 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [71.7-50.0]%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 2828384-2828961 **** Predicted by CRISPRDetect 2.4 *** >NZ_LS483465.1 Salmonella enterica subsp. enterica serovar Senftenberg strain NCTC10080 chromosome 1, complete sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ================================ =============================== ================== 2828384 32 81.2 31 ..G....A.....G..C........G.....A CTGTGGGTTAGCATCAACCGACAGCGTCTGC 2828447 32 90.6 31 ......T..................G..C... TTGTGGATTGCGATCGAGCGTCAGCAACTCC 2828510 32 96.9 28 ...............A................ TTGATTATCTGATACCGACAGCACCTGT 2828570 32 100.0 28 ................................ TTGATTACCTGCTACCGACAGCATCTGT 2828630 32 100.0 28 ................................ TTGGTTACGTGCTACCAACAGCATCTGT 2828690 32 100.0 28 ................................ TTGGTTACCTGCTACCGACAGCGTCTGT 2828750 32 93.8 28 ..........A............A........ TTGGTTACCTGATACCGTCAGCACCACC 2828810 32 96.9 28 ..............T................. TTGGTTATCTTCGACAGTAAGCACCTCC 2828870 32 96.9 28 .......A........................ TTGGTTATCTTCGACAGTAAGCACCTCC 2828930 32 90.6 0 .......A.....G..T............... | ========== ====== ====== ====== ================================ =============================== ================== 10 32 94.7 29 AGTCCTGCCGGCAACGGCGGCAGGCTGGTCAG # Left flank : TCTGGTGCAGAGCAAGTGTGACCCGATCCTGGCAGCTTGCTGTTGCCTCTGTTGCCATGGCAAAGGTTTTTGCTCTCAGCGCCTCATCTTCAGCCAGTTGTACCAGCCAGGACGATATCTGTGCCTTAAATCCCGCGTCCTTTATGCAGTTTTCCGTCTCACCCAGTCTGTCCAGGAAGAGGCTGAAGGCGGCAGCGTTATCTTCCTGTCCGAACATATGCCATCTGTCTGCAGGAGCCGATTCCCCTTCCCGGGCAGGCACCAGCCAGTTAGCGGCCGCCAGGTGCAGTGCCCGTGCTTCCCGGGGGGCGGAGGCCCCCGCCATATCGAATAGTATCCTGGGGCCTGAATAGCCAGGCGCGCTGGTGATATTCTGCAGCGCCTGCAGAGTGCGTTCAGACAGAGGATTGCCATACAGATTTACGATTGCCTCTGAAGACAGACCCGTGATGCTTTCCGGCAGGCGGGTCAGTTGGTTATTGCGGGCATACAACCGTTGT # Right flank : GATAATTATTATGAGGAATAACCAATGTTGTTATATGCGCTGGTAAACAGTCTGGTAAGGCGGTAAGGCCTGACTCTCCCACATTAAGCTCTCGACTGCCGTTATTCAGGCAGGTACATATTCTCTGTACCGTCGCAGCACGACCGCGTAACTCTTCTGCTGGCGCAGCCCCCTTCCATTCTGACCAGACAGCATCATACTCTGCTGGTGTCTGTGGAGCCGCCGGAGCCGGAAGGGGGGATACCTGGAGTGTCCCGGATGCCCCTTCCGCATGTTCTGTACATTCCTCTCCCTGTTCTATGTCCATGGTGAAGCGATATGTTTCATTGTGCCCCTGGCAATTCACGGTATAGTTCCCGGCGTCATCAAGGGTGACCGACAATATCTCCTGGTTGTCTGCATCCAGGATACAGAAGTGGCTTTCCCCGTGGCGGCCGGAGTGAATGCTTTCCTCGTATCCGGCATACGCGAGCATCCTGAGCTGTTCAAATCTGCTGACT # Questionable array : NO Score: 2.51 # Score Detail : 1:0, 2:0, 3:0, 4:0.74, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.51, # 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 : AGTCCTGCCGGCAACGGCGGCAGGCTGGTCAG # 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: NA # Secondary Structural analysis prediction: F [-7.70,-6.20] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [10-7] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [43.3-65.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.74,0.68 Confidence: LOW] # Array family : NA //