Array 1 455447-456939 **** Predicted by CRISPRDetect 2.4 *** >NZ_QBGB01000001.1 Salmonella enterica subsp. enterica serovar 4,[5],12:i:- strain C55H1 NODE_1_length_635739_cov_28.0034, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 455447 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 455508 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 455569 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 455630 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 455691 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 455752 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 455813 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 455874 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 455935 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 455996 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 456057 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 456118 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 456179 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 456240 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 456301 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 456362 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 456424 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 456485 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 456546 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 456607 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 456668 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 456729 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 456790 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 456851 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 456912 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # 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], // Array 2 473071-475035 **** Predicted by CRISPRDetect 2.4 *** >NZ_QBGB01000001.1 Salmonella enterica subsp. enterica serovar 4,[5],12:i:- strain C55H1 NODE_1_length_635739_cov_28.0034, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 473071 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 473132 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 473193 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 473254 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 473315 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 473376 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 473437 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 473499 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 473560 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 473621 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 473682 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 473743 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 473804 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 473865 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 473926 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 473987 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 474048 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 474109 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 474170 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 474231 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 474292 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 474354 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 474457 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 474518 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 474579 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 474640 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 474701 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 474762 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 474823 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 474884 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 474945 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 475006 29 96.6 0 A............................ | A [475032] ========== ====== ====== ====== ============================= ========================================================================== ================== 32 29 99.6 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.08, 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 [1-3] 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 1 189-38 **** Predicted by CRISPRDetect 2.4 *** >NZ_QBGB01000108.1 Salmonella enterica subsp. enterica serovar 4,[5],12:i:- strain C55H1 NODE_108_length_225_cov_1.16327, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 188 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 127 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 66 29 96.6 0 .............T............... | ========== ====== ====== ====== ============================= ================================ ================== 3 29 98.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : AATCGAAACGAAAGAGGCTATGCGGTTGTTTATCGG # Right flank : GATGCCGGAACGCTGATGGCGTTTGACATGAGCGTGTT # Questionable array : NO Score: 5.31 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 5:0, 6:0.25, 7:0.02, 8:0.4, 9:0.69, # 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: R [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [28.3-35.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //