Array 1 3107573-3105669 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP011428.1 Salmonella enterica subsp. enterica serovar Typhimurium strain YU39 isolate YUHS 05-78 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 3107572 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 3107511 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 3107450 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 3107389 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 3107328 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 3107267 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 3107206 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 3107144 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 3107083 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 3107022 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 3106961 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 3106900 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 3106839 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 3106778 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 3106717 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 3106656 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 3106595 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 3106534 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 3106473 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 3106412 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 3106350 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 3106247 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 3106186 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 3106125 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 3106064 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 3106003 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 3105942 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 3105881 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 3105820 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 3105759 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 3105698 29 96.6 0 A............................ | A [3105671] ========== ====== ====== ====== ============================= ========================================================================== ================== 31 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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: 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 [3-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 3125197-3123704 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP011428.1 Salmonella enterica subsp. enterica serovar Typhimurium strain YU39 isolate YUHS 05-78 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3125196 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 3125135 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 3125074 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 3125013 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 3124952 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 3124891 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 3124830 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 3124769 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 3124708 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 3124647 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 3124586 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 3124525 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 3124464 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 3124403 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 3124342 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 3124281 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 3124219 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 3124158 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 3124097 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 3124036 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 3123975 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 3123914 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 3123853 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 3123792 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 3123731 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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: 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 [9-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-70.0]%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], //