New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? CP000730 2388283 =146 (1.130)4 (0.040) 4/220 NT 3.3% intergenic (+18/+84) USA300HOU_2247/USA300HOU_2248 MFS family major facilitator transporter/hypothetical protein
?CP000730 2388362 = 106 (0.950)intergenic (+97/+5) USA300HOU_2247/USA300HOU_2248 MFS family major facilitator transporter/hypothetical protein
Rejected: Frequency below/above cutoff threshold.

AGTACTTCTCAAAAGAAATTGTTAGATAAAATTACTAAAGAAATAGAAGTGTTAAGCGTTACAAACTAAAAACTTAAAAAGCATGCCAATCAGTACATCATAATTGCGTCTTGGGGACAGACAAATGATGAATAGAGATTGGCATGCTTTTTA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  CP000730/2388435‑2388283
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gattggcatgctttttaAGTTTTTAGTTTGTAACGCTTAACACTTCTATTTCTTTAGTAATTTTATCTAACAATTTCTTTTGAGAAGTACTATAGAAATAGAATACTTGTCTTTCATCCGTTTCAGAACGCAATTTAGAAATAAGCTCTTTTTTATA  >  CP000730/2388362‑2388501
                                                                                                                                                                                                                                                                                                     
AGTACTTCTCAAAAGAAATTGTTAGATAAAATTACTAAAGAAATAGAAGTGTTAAGCGTTACAAACTAAAAACTTAAAAAGCATGCCAATCAGTACATCATAATTGCGTCTTGGGGACAGACAAATGATGAATAGAGATTG                                                                                                                                                          >  1:1409580/1‑141
      TCTCAAAAGAAATTGTTAGATAAAATTACTAAAGAAATAGAAGTGTTAAGCGTTACAAACTAAAAACTTAAAAAGCATGCCAATCAGTACATCATAATTGCGTCTTGGGGACAGACAAATGATGAATAGAGATTGGCATGC                                                                                                                                                    >  1:716715/1‑141
       CTCAAAAGAAATTGTTAGATAAAATTACTAAAGAAATAGAAGTGTTAAGCGTTACAAACTAAAAACTTAAAAAGCATGCCAATCAGTACATCATAATTGCGTCTTGGGGACAGACAAATGATGAATAGAGATTGGCATGCT                                                                                                                                                   >  1:36352/1‑141
        TCAAAAGAAATTGTTAGATAAAATTACTAAAGAAATAGGAGTGTTAAGCGTTACAAACTAAAAACTTAAAAAGCATGCCAATCAGTACATCATAATTGCGTCTTGGGGACAGACAAATGATGAATAGAGATTGGCATGCTT                                                                                                                                                  <  2:1414215/141‑1
        TCAAAAGAAATTGTTAGATAAAATTACTAAAGAAATAGAAGTGTTAAGCGTTACAAACTAAAAACTTAAAAAGCATGCCAATCAGTACATCATAATTGCGTCTTGGGGACAGACAAATGATGAATAGAGATTGGCATGCTT                                                                                                                                                  <  1:495688/141‑1
        TCAAAAGAAATTGTTAGATAAAATTACTAAAGAAATAGAAGTGTTAAGCGTTACAAACTAAAAACTTAAAAAGCATGCCAATCAGTACATCATAATTGCGTCTTGGGGACAGACAAATGATGAATAGAGATTGGCATGCTT                                                                                                                                                  <  1:998887/141‑1
        TCAAAAGAAATTGTTAGATAAAATTACTAAAGAAATAGAAGTGTTAAGCGTTACAAACTAAAAACTTAAAAAGCATGCCAATCAGCACATCATAATTGCGTCTTGGGGACAGACAAATGATGAATAGAGATTGGCATGCTT                                                                                                                                                  <  1:1540393/141‑1
         CAAAAGAAATTGTTAGATAAAATTACTAAAGAAATAGAAGTGTTAAGCGTTACAAACTAAAAACTTAAAAAGCATGCCAATCAGTACATCATAATTGCGTCTTGGGGACAGACAAATGATGAATAGAGATTGGCATGCTTT                                                                                                                                                 <  1:1143009/141‑1
          AAAAGAAATTGTTAGATAAAATTACTAAAGAAATAGAAGTGTTAAGCGTTACAAACTAAAAACTTAAAAAGCATGCCAATCAGTACATCATAATTGCGTCTTGGGGACAGACAAATGATGAATAGAGATTGGCATGCTTTT                                                                                                                                                <  2:496245/141‑1
           AAAGACAATGTAAGATAAAATTACTAAAGAAATAGAAGTGTTAAGCGTTACAAACTAAAAACTTAAAAAGCATGCCAATCAGTACATCATAATTGCGTCTTGAGGACAGACAAATGCTGAATACAGATTGGCATGCTTTTT                                                                                                                                               >  2:11027/1‑141
           AAAGAAATTGTTAGATAAAATTACTAAAGAAATAGAAGTGTTAAGCGTTACAAACTAAAAACTTAAAAAGCATGCCAATCAGTACATCATAATTGCGTCTTGGGGACAGACAAATGATGAATAGAGATTGGCATGCTTTTT                                                                                                                                               <  1:245232/141‑1
           AAAGAAATTGTTAGATAAAATTACTAAAGAAATAGAAGTGTTAAGCGTTACAAACTAAAAACTTAAAAAGCATGCCAAGCAGTACAGCATAATTGCGTCTTGGGGACAGACAAATGATGAATAGAGATTGGCATGCTTTTT                                                                                                                                               <  2:1164861/141‑1
                                  CTAAAGAAATAGAAGTGTTAAGCGTTACAAACTAAAAACTTAAAAAGCATGCCAATCAGTACATCATAATTGCGTCTTGGGGACAGACAAATGATGAATAGAGATTGGCATGCTTTT                                                                                                                                                >  1:430339/1‑117
                                  CTAAAGAAATAGAAGTGTTAAGCGTTACAAACTAAAAACTTAAAAAGCATGCCAATCAGTACATCATAATTGCGTCTTGGGGACAGACAAATGATGAATAGAGATTGGCATGCTTTT                                                                                                                                                <  2:430339/117‑1
                                          ATAGAAGTGTTAAGCGTTACAAACTAAAAACTTAAAAAGCATGCCAATCAGTACATCATAATTGCGTCTTGGGGACAGACAAATGATGAATAGAGATTGGCATGCTTTTTAAGTTATTAGTTAGTAACGCTTAACACTTCT                                                                                                                >  2:865701/1‑141
                                                                                  ATGCCAATCAGTACATCATAATTGCGTCTTGGGGACAGACAAATGATGAATAGAGATTGGCATGCTTTTTAAGTTTTTAGTTTGTAACGCTTAACACTTCTATTTCTTTAGTAATTTTATCTAACAATTTCTTTTGAGAAG                                                                        >  1:1374903/1‑141
                                                                                           AGTACATCATAATTGCGTCTTGGGGACAGACAAATGATGAATAGAGATTGGCATGCTTTTTAAGTTTTTAGTTTGTAACGCTTAACACTTCTATTTCTTTAGTAATTTTATCTAACAATTTCTTTTGAGAAGTACTATAGA                                                               >  1:619500/1‑141
                                                                                             TACATCATAATTGCGTCTTGGGGACAGACAAATGATGAATAGAGATTGGCATGCTTTTTAAGTTTTTAGTTTGTAACGCTTAACACTTCTATTTCTTTAGTAATTTTATCTAACAATTTCTTTTGAGAAGTACTATAGAAA                                                             >  1:127992/1‑141
                                                                                                                                  agcaatcattactATGCTTTTTAAGTTTTTTGTTTGTAACGCTTAACACTTCTATTTCTTTAGTAATTTTATCTAACAATTTCTTTTGAGAAGTACTATAGAAATAGAATACTTGTCTTTCATCCGTTTCAGAACGCAATT                        <  1:938210/128‑1
                                                                                                                                        GATTGGCATGCTTTTTAAGTTTTTAGTTTGTAACGCTTAACACTTCTATTTCTTTAGTAATTTTATCTAACAATTTCTTTTGAGAAGTACTATAGAAATAGAATACTTGTCTTTCATCCGTTTCAGAACGCAATTTAGAAA                  >  2:163469/1‑141
                                                                                                                                          TTGGCATGCTTTTTAAGTTTTTAGTTTGTAACGCTTAACACTTCTATTTCTTTAGTAATTTTATTTAACAATTTCTTTTGAGAAGTACTATAGAAATAGAATACTTGTCTTTCATCCGTTTCAGAACGCAATTTAGAAATA                >  2:659210/1‑141
                                                                                                                                          TTGGCATGCTTTTTAAGTTTTTAGTTTGTAACGCTTAACACTTCTATTTCTTTAGTAATTTTATCTAACAATTTCTTTTGAGTAGTACTATAGAAATAGAATACTTGTCTTTCATCCGTTTCAGAACGCAATTTAGAAATA                >  2:659466/1‑141
                                                                                                                                          TTGGCATGCTTTTTAAGTTTTTAGTTTGTAACGCTTAACACTTCTATTTCTTTAGTAATTTTATCTAACAATTTCTTTTGAGAAGTACTATAGAAATAGAATACTTGTCTTTCATCCGTTTCAGAACGCAATTTAGAAATA                >  2:556134/1‑141
                                                                                                                                          TTGGCATGCTTTTTAAGTTTTTAGTTTGTAACGCTTAACACTTCTATTTCTTTAGTAATTTTATCTAACAATTTCTTTTGAGAAGTACTATAGAAATAGAATACTTGTCTTTCATCCGTTTCAGAACGCAATTTAGAAATA                <  2:334659/141‑1
                                                                                                                                             GCATGCTTTTTAAGTTTTTAGTTTGTAACGCTTAACACTTCTATTTCTTTAGTAATTTTATCTAACAATTTCTTTTGAGAAGTACTATAGAAATAGAATACTTGTCTTTCATCCGTTTCAGAACGCAATTTAGAAATAAGC             <  2:590293/141‑1
                                                                                                                                             GCATGCTTTTTAAGTTTTTAGTTTGTAACGCTTAACACTTCTATTTCTTTAGTAATTTTATCTAACAATTTCTTTTGAGAAGTACTATAGAAATAGAATACTTGTCTTTC                                            <  2:384911/110‑1
                                                                                                                                             GCATGCTTTTTAAGTTTTTAGTTTGTAACGCTTAACACTTCTATTTCTTTAGTAATTTTATCTAACAATTTCTTTTGAGAAGTACTATAGAAATAGAATACTTGTCTTTC                                            >  1:384911/1‑110
                                                                                                                                              CATGCTTTTTTTTTTTTTTTTTTGTAACGCTTAACACTTCTATTTCTTTAGTAATTTTATCTAACAATTTCTTTTGAGAAGTACTATAGAAATAGAATACTTGTCTTTCATCTGTTTCAGAACGCAATTTAGAAATAAGCT            >  2:926151/1‑141
                                                                                                                                                TGCTTTTTAAGTTTTTAGTTTGTAACGCTTAACACTTCTATTTCTTTAGTAATTTTATCTAACAATTTCTTTTGAGAAGTACTATAGAAATAGAATACTTGTCTTTCATCCGTTTCAGAACGCAATTTAGAAATAAGCTCT          <  1:87716/141‑1
                                                                                                                                                TGCTTTTTAAGTTTTTAGTTTGTAACGCTTAACACTTCTATTTCTTTAGTAATTTTATCTAACAATTTCTTTTGAGAAGTACTATAGAAATAGAATACTTGTCTTTCATCCGTTTCAGAACGCAATTTAGAAATAAGCTCT          >  2:724470/1‑141
                                                                                                                                                 GCTTTTTAAGTTTTTAGTTTGTAACGCTTAACACTTCTATTTCTTTAGTAATTTTATCTAACAATTTCTTTTGAGAAGTACTATAGAAATAGAATACTTGTCTTTCATCCGTTTCAGAACGCAATTTAGAAATAAGCTCTT         >  2:716216/1‑141
                                                                                                                                                 GCTTTTTAAGTTTTTAGTTTGTAACGCTTAACACTTCTATTTCTTTAGTAATTTTATCTAACAATTTCTTTTGAGAAGTACTATAGAAATAGAATACTTGTCTTTCATCCGTTTCAGAACGCAATTTAGAAATAAGCTCTT         >  2:1431696/1‑141
                                                                                                                                                  CTTTTTAAGTTTTTAGTTTGTAACGCTTAACACTTCTATTTCTTTAGTAATTTTATCTAACAATTTCTTTTGAGAAGTACTATAGAAATAGAATACTTGTCTTTCATCCGTTTCAGAACGCAATTTAGAAATAAGCTCTTT        <  2:962951/141‑1
                                                                                                                                                      TTAAGTTTTTAGTTTGTAACGCTTAACACTTCTATTTCTTTAGTAATTTTATCTAACAATTTCTTTTGAGAAGTACTATAGAAATAGAATACTTGTCTTTCATCCGTTTCAGAACGCAATTTAGAAATAAGCTCTTTTTTA    >  2:784752/1‑141
                                                                                                                                                      TTAAGTTTTTAGTTTGTAACGCTTAACACTTCTATTTCTTTAGTAATTTTATCTAACAATTTCTTTTGAGAAGTACTATAGAAATAGAATACTTGTCTTTCATCCGTTTCAGAACGCAATTTAGAAATAAGCTCTTTTTTA    >  2:1028685/1‑141
                                                                                                                                                      TTAAGTTTTTAGTTTGTAACGCTTAACACTTCTATTTCTTTAGTAATTTTATCTAACAATTTCTTTTGAGAAGTACTATAGAAATAGAATACTTGTCTTTCATCCGTTTCAGAACGCAATTTAGAAATAAGCTCTTTTTTA    <  1:254626/141‑1
                                                                                                                                                      TTAAGTTTTTAGTTTGTAACGCTTAACACTTCTATTTCTTTAGTAATTTTATCTAACAATTTCTTTTGAGAAGTACTATAGAAATAGAATACTTGTCTTTCATCCGTTTCAGAACGCAATTTAGAAATAAGCTCTTTTTTA    <  1:651386/141‑1
                                                                                                                                                       TAAGTTTTTAGTTTGTAACGCTTAACACTTCTATTTCTTTAGTAATTTTATCTAACAATTTCTTTTGAGAAGTACTATAGAAATAGAATACTTGTCTTTCATCCGTTTCAGAACGCAATTTAGAAATAAGCTCTTTTTTAT   <  2:1038351/141‑1
                                                                                                                                                       TAAGTTTTTAGTTTGTAACGCTTAACACTGCTATTTCTTGATGAATTTTATCTAACAATTTCTTTTGAGAAGTACTATAGAAATAGAATACTTGTCTTTCATCCGTTTCAGAACGCAATTTAGAAATAAGCTCTTTTTTAT   <  1:59569/141‑1
                                                                                                                                                        AAGTTTTTAGTTTGTAACGCTTAACACTTCTATTTCTTTAGTAATTTTATCTAACAATTTCTTTTGAGAAGTACTATAGAAATAGAATACTTGTCTTTCATCCGTTTCAGAACGCAATTTAGAAATAAGCTCTTTTTTATA  >  1:98496/1‑141
                                                                                                                                                        AAGTTTTTAGTTTGTAACGCTTAACACTTCTATTTCTTTAGTAATTTTATCTAACAATTTCTTTTGAGAAGTACTATAGAAATAGAATACTTGTCTTTCATCCGTTTCAGAACGCAATTTAGAAATAAGCTCTTTTTTATA  >  2:1307941/1‑141
                                                                                                                                                                                                                                                                                                     
AGTACTTCTCAAAAGAAATTGTTAGATAAAATTACTAAAGAAATAGAAGTGTTAAGCGTTACAAACTAAAAACTTAAAAAGCATGCCAATCAGTACATCATAATTGCGTCTTGGGGACAGACAAATGATGAATAGAGATTGGCATGCTTTTTA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  CP000730/2388435‑2388283
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gattggcatgctttttaAGTTTTTAGTTTGTAACGCTTAACACTTCTATTTCTTTAGTAATTTTATCTAACAATTTCTTTTGAGAAGTACTATAGAAATAGAATACTTGTCTTTCATCCGTTTCAGAACGCAATTTAGAAATAAGCTCTTTTTTATA  >  CP000730/2388362‑2388501

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ 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.