New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? USA300TCH1516_ALE = 2681424118 (0.950)4 (0.040) 3/228 NT 3.4% intergenic (‑459/+120) USA300HOU_RS13810/mvaA hypothetical protein/3‑hydroxy‑3‑methylglutaryl‑coenzyme A reductase
?USA300TCH1516_ALE = 2681449 123 (1.120)intergenic (‑484/+95) USA300HOU_RS13810/mvaA hypothetical protein/3‑hydroxy‑3‑methylglutaryl‑coenzyme A reductase
Rejected: Frequency below/above cutoff threshold.

ATCAAAATGATAGGAACTTGAAGAATCTAAGACTGTTAAAATCGAGACAATAAGAAACTCGTTCCAAATTTGAATCCTATAATGAATTCGTCTCATGAAGAAGTTATTTACTTTTCATTAGACTGATTTACTAATCAAAAAACTTCTATCAC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  USA300TCH1516_ALE/2681273‑2681424
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑aaaaacttctatcacACGCATACAGGAAATTGAAGCGTTCGTGATAGAAGTTTTTTGATTAGTAAATCAGTCTAATGAAAAGTAAATAACTTCTTCATGAGACGAATTCATTATAGGATTCAAATTTGGAACGAGTTTCTTATTGTCTCGATTTT  <  USA300TCH1516_ALE/2681449‑2681310
                                                                                                                                                                                                                                                                                                    
ATCAAAATGATAGGAACTTGAAGAATCTAAGACTGTTAAAATCGAGACAATAAGAAACTCGTTCCAAATTTGAATCCTATAATGAATTCGTCTCATGAAGAAGTTATTTACTTTTCATTAGACTGATTTACTAATCAAAAA                                                                                                                                                         <  1:551419/141‑1
ATCAAAATGATAGGAACTTGAAGAATCTAAGACTGTTAAAATCGAGACAATAAGAAACTCGTTCCAAATTTGAATCCTATAATGAATTCGTCTCATGAAGAAGTTATTTACTTTTCATTAGACTGATTTACTAATCAAAAA                                                                                                                                                         <  2:988663/141‑1
ATCAAAATGATAGGAACTTGAAGAATCTAAGACGGTTAAAATCGAGACAATAAGAGAGTCGTTCCAAATTTGAATCCTATAACGAATTCGTCTCATGAAGAAGTTATTTACTTTTCATTAGACTGATTTACTAATCAAAAA                                                                                                                                                         >  1:919905/1‑141
 TCAACATGCTAGGAACTTGAACAATCTAAGACTGTTACAATCGAGACAATAAGAAACTCGTTCCAAATTTGAATCCTATAATGAATTCGTCTCATGAAGAAGTTATTTACTTTTCATTAGACTGGTTTACTAANCAAAAAA                                                                                                                                                        >  2:812670/1‑141
 TCAAAATGATAGGAACTTGAAGAATCTAAGACTGTTAAAATCGAGACAATAAGAAACTCGTTCCAAATTTGAATCCTATAATGAATTCGTCTCATGAAGAAGTTATTTACTTTTCATTAGACTGATTTACTAATCAAAAAA                                                                                                                                                        >  1:726986/1‑141
 TCAAAATGATAGGAACTTGAAGAATCTAAGACTGTTAAAATCGAGACAATAAGAAACTCGTTCCAAATTTGAATCCTATAATGAATTCGTCTCATGAAGAAGTTATTTACTTTTCATTAGACTGATTTAATAATCAAAAAA                                                                                                                                                        <  4:61449/141‑1
  CAAAATGATAGGAACTTGAAGAATCTAAGACTGTTAAAATCGAGACAATAAGAAACTCGTTCCAAATTTGAATCCTATAATGAATTCGTCTCATGAAGAAGTTATTTACTTTTCATTAGACTGATTTACTAATCAAAAAAC                                                                                                                                                       >  4:288420/1‑141
  CAAAATGATAGGAACTTGAAGAATCTAAGACTGTTAAAATCGAGACAATAAGAAACTCGTTCCAAATTTGAATCCTATAATGAATTCGTCTCATGAAGAAGTTATTTACTTTTCATTAGACTGATTTACTAATCAAAAAAC                                                                                                                                                       >  3:264577/1‑141
   AAAATGATAGGAACTTGAAGAATCTAAGACTGTTAAAATCGAGACAATAAGAAACTCGTTCCAAATTTGAATCCTATAATGAATTCGTCTCATGAAGAAGTTATTTACTTTTCATTAGACTGATTTACTAATCAAAAAACT                                                                                                                                                      >  2:673629/1‑141
    AAATGATAGGAACTTGAAGAATCTAAGACTGTTAAAATCGAGACAATAAGAAACTCGTTCCAAATTTGAATCCTATAATGAATTCGTCTCATGAAGAAGTTATTTACTTTTCATTAGACTGATTTACTAATCAAAAAACTT                                                                                                                                                     >  1:709109/1‑141
     AATGATAGGAACTTGAAGAATCTAAGACTGTTAAAATCGAGACAATAAGAAACTCGTTCCAAATTTGAATCCTATAATGAATTCGTCTCATGAAGAAGTTATTTACTTTTCATTAGACTGATTTACTAATCAAAAAACTTC                                                                                                                                                    >  4:220537/1‑141
          TAGGAACTTGAAGAATCTAAGACTGTTAAAATCGAGACAATAAGAAACTCGTTCCAAATTTGAATCCTATAATGAATTCGTCTCATGAAGAAGTTATTTACTTTTCATTAGACTGATTTACTAATCAAAAAACTTCTATCA                                                                                                                                               <  2:326499/141‑1
                                          CGAGACAATAAGAAACTCGTTCCAAATTTGAATCCTATAATGAATTCGTCTCATGAAGAAGTTATTTACTTTTCATTAGACTGATTTACTAATCAAAAAACTTCTATCACACGCATACAGGAAATTGAAGCGTTCGTGATA                                                                                                               <  2:362400/141‑1
                                          CGAGACAATAAGAAACTCGTTCCAAATTTGAATCCTATAATGAATTCGTCTCATGAAGAAGTTATTTACTTTTCATTAGACTGATTTACTAATCAAAAAACTTCTATCACACGCATACAGGAAATTGAAGCGTTCGTGATA                                                                                                               <  2:548075/141‑1
                                           GAGACAATAAGAAACTCGTTCCAAATTTGAATCCTATAATGAATTCGTCTCATGAAGAAGTTATTTACTTTTCATTAGACTGATTTACTAATCAAAAAACTTCTATCACACGCATACAGGAAATTGAAGCGTTCGTGATAG                                                                                                              <  4:134338/141‑1
                                             GACAATAAGAAACTCGTTCCAAATTTGAATCCTATAATGAATTCGTCTCATGAAGAAGTTATTTACTTTTCATTAGACTGATTTACTAATCAAAAAACTTCTATCACACGCATACAGGAAATTGAAGCGTTCGTGATAGAA                                                                                                            <  3:448619/141‑1
                                                                                                                                     ATCAAAAAACTTCTATCAAACGCATACAGGAAATTAAAGCGTTAGTGATAGAAATTTTTTGATTAGTAAATCAGTCTAATGAAAAGTAAATAACTTCTTCATGAGACGAATTCATTATAGGATTCAAATTTGGAACGAGTT                    <  2:473944/141‑1
                                                                                                                                          AAAACTTCTATCACACGCATACAGGAAATTGAAGCGTTCGTGATAGAAGTTTTTTGATTAGTAAATCAGTCTAATGAAAAGTAAATAACTTCTTCATGAGACGAATTCATTATAGGATTCAAATTTGGAACGAGTTTCTTA               >  4:347038/1‑141
                                                                                                                                            AACTTCTATCACACGCATACAGGAAATTGAAGCGTTCGTGATAGAAGTTTTTTGATTAGTAAATCAGTCTAATGAAAAGTAAATAACTTCTTCATGAGACGAATTCATTATAGGATTCAAATTTGGAACGAGTTTCTTATT             >  1:171665/1‑141
                                                                                                                                             ACTTCTATCACACGCATACAGGAAATTGAAGCGTTCGTGATAGAAGTTTTTTGATTAGTAAATCAGTCTAATGAAAAGTAAATAACTTCTTCATGAGACGAATTCATTATAGGATTCAAATTTGGAACGAGTTTCTTATTG            <  4:191311/141‑1
                                                                                                                                              CTTCTATCACACGCATACAGGAAATTGAAGCGTTCGTGATAGAAGTTTTTTGATTAGTAAATCAGTCTAATGAAAAGTAAATAACTTCTTCATGAGACGAATTCATTATAGGATTCAAATTTGGAACGAGTTTCTTATTGT           <  2:277997/141‑1
                                                                                                                                              CTTCTATCACACGCATACAGGAAATTGAAGCGTTCGTGATAGAAGTTTTTTGATTAGTAAATCAGTCTAATGAAAAGTAAATAACTTCTTCATGAGACGAATTCATTATAGGATTCAAATTTGGAACGAGTTTCTTATTGT           <  1:564950/141‑1
                                                                                                                                               TTCTATCACACGCAGACAGGAAATTGAAGCGTTCGTGATAGAAGTTTTTTGATTAGTAAATCAGTCTAATGAAAAGTAAATAACTTCTTCATGAGACGAATTCATTATAGGATTCAAATTTGGAACGAGTTTCTTATTGTC          <  1:83471/141‑1
                                                                                                                                                TCTATCACACGCATACAGGAAATTGAAGCGTTCGTGATAGAAGTTTTTTGATTAGTAAATCAGTCTAATGAAAAGTAAATAACTTCTTCATGAGACGAATTCATTATAGGATTCAAATTTGGAACGAGTTTCTTATTGTCT         <  1:540431/141‑1
                                                                                                                                                TCTATCACACGCATACAGGAAATTGAAGCGTTCGTGATAGAAGTTTTTTGATTAGTAAATCAGTCTAATGAAAAGTAAATAACTTCTTCATGAGACGAATTCATTATAGGATTCAAATTTAGAACGAGTTTCTTATTGTCT         >  4:191020/1‑141
                                                                                                                                                TCTATCACACGCATAAAGGAAATTGAAGCGTTCGTGATAGAAGTTTTTTGATTAGTAAATCAGTCTAATGAAAAGTAAATAACTTCTTCATGAGACGAATTCATTATAGGATTCAAATTTGGAACGAGTTTCTTATTGTCT         <  2:1028497/141‑1
                                                                                                                                                   ATCACACGCATACAGGAAATTGAAGCGTTCGTGATAGAAGTTTTTTGATTAGTAAATCAGTCTAATGAAAAGTAAATAACTTCTTCATGAGACGAATTCATTATAGGATTCAAATTTGGAACGAGTTTCTTATTGTCTCGA      >  1:30891/1‑141
                                                                                                                                                   ATCACACGCATACAGGAAATTGAAGCGTTCGTGATAGAAGTTTTTTGATTAGTAAATCAGTCTAATGAAAAGTAAATAACTTCTTCATGAGACGAATTCATTATAGGATTCAAATTTGGAACGAGTTTCTGATTGTCTCGt      >  2:213495/1‑140
                                                                                                                                                    TCACACGCATACAGGAAATTGAAGCGTTCGTGATAGAAGTTTTTTGATTAGTAAATCAGTCTAATGAAAAGTAAATAACTTCTTCATGAGACGAATTCATTATAGGATTCAAATTTGGAACGAGTTTCTTATTGTCTCGAT     >  3:400317/1‑141
                                                                                                                                                      ACACGCATACAGGAAATTGAAGCGTTCGTGATAGAAGTTTTTTGATTAGTAAATCAGTCTAATGAAAAGTAAATAACTTCTTCATGAGACGAATTCATTATAGGATTCAAATTTGGAACGAGTTTCTTATTGTCTCGATTT   <  2:97167/141‑1
                                                                                                                                                      ACACGCATACAGGAAATTGAAGCGTTCGTGATAGAAGTTTTTTGATTAGTAAATCAGTCTAATGAAAAGTAAATAACTTCTTCATGAGACGAATTCATTATAGGATTCAAATTTGGAACGAGTTTCTTATTGTCTCGATTT   >  2:1036530/1‑141
                                                                                                                                                       CACGCATACAGGAAATTGAAGCGTTCGTGATAGAAGTTTTTTGATTAGTAAATCAGTCTAATGAAAAGTAAATAACTTCTTCATGAGACGAATTCATTATAGGATTCAAATTTGGAACGAGTTTCTTATTGTCTCGATTTT  <  3:29066/141‑1
                                                                                                                                                       CACGCATACAGGAAATTGAAGCGTTCGTGATAGAAGTTTTTTGATTAGTAAATCAGTCTAATGAAAAGTAAATAACTTCTTCATGAGACGAATTCATTATAGGATTCAAATTTGGAACGAGTTTCTTATTGTCTCGATTTT  <  3:28608/141‑1
                                                                                                                                                       CACGCATACAGGAAATTGAAGCGTTCGTGATAGAAGTTTTTTGATTAGTAAATCAGTCTAATGAAAAGTAAATAACTTCTTCATGAGACGAATTCATTATAGGATTCAAATTTGGAACGAGTTTCTTATTGTCTCGATTTT  <  4:428962/141‑1
                                                                                                                                                                                                                                                                                                    
ATCAAAATGATAGGAACTTGAAGAATCTAAGACTGTTAAAATCGAGACAATAAGAAACTCGTTCCAAATTTGAATCCTATAATGAATTCGTCTCATGAAGAAGTTATTTACTTTTCATTAGACTGATTTACTAATCAAAAAACTTCTATCAC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  USA300TCH1516_ALE/2681273‑2681424
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑aaaaacttctatcacACGCATACAGGAAATTGAAGCGTTCGTGATAGAAGTTTTTTGATTAGTAAATCAGTCTAATGAAAAGTAAATAACTTCTTCATGAGACGAATTCATTATAGGATTCAAATTTGGAACGAGTTTCTTATTGTCTCGATTTT  <  USA300TCH1516_ALE/2681449‑2681310

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: 
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.