New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913_3_pae_tpiA 3719794 =20 (1.600)3 (0.260) 3/242 1.3 14.4% intergenic (+26/‑255) yiaG/cspA HTH_CROC1 family putative transcriptional regulator/RNA chaperone and antiterminator, cold‑inducible
?NC_000913_3_pae_tpiA 3719816 = 17 (1.460)intergenic (+48/‑233) yiaG/cspA HTH_CROC1 family putative transcriptional regulator/RNA chaperone and antiterminator, cold‑inducible
Rejected: Frequency below/above cutoff threshold.

ATGGGAATCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAGACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAAATAATTGTTGCATCACCCGCCAATGCGTGGCTTAATGCACATCAACGGTTTGACGTACAGACCATTAAAGCAGTGTAGTAAGGCAAGTCCCTTCAAGAGTTATCG  >  NC_000913_3_pae_tpiA/3719672‑3719950
                                                                                                                                                |                                                                                                                                      
aTGGGAATCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAGACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCa                                                                                                                                   >  1:102173/1‑150 (MQ=255)
      aTCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAGACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGAt                                                                                                                             >  4:67737/1‑150 (MQ=255)
                   aaGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAGACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAatat                                                                                                                <  3:43781/150‑1 (MQ=255)
                        ttCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAGACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGaaaa                                                                                                           >  3:56631/1‑150 (MQ=255)
                             gTGCCGAACAAAAAGTGATGCGCTTGATTAAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAGACTTTTATCCACTTTATTGCTATTTACGGTCCTGATGAAAAGACCGTTTTCCAACCGATTAATAATAAATATGAAAaataat                                                                                                      >  2:96331/1‑150 (MQ=255)
                                  gAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAGACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAAATAAttgttg                                                                                                 <  4:56631/150‑1 (MQ=255)
                                                 cGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAGACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAaataat                                                                                                      >  1:96573/1‑130 (MQ=255)
                                                 cGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAGACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAaataat                                                                                                      <  2:96573/130‑1 (MQ=255)
                                                      gATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAGACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAAATAATTGTTGCATCACCCGCCAATGCGTgg                                                                             <  2:102173/150‑1 (MQ=255)
                                                           aaGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAGACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAAATAATTGTTGCATCACCCGCCAATGCGTGGCTTaa                                                                        <  4:30314/150‑1 (MQ=255)
                                                                   ccGGCATTAAGTAAGCAGTTGATGGAATAGACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAAATAATTGTTGCATCACCCGCCAATGCGTgg                                                                             <  3:19667/137‑1 (MQ=255)
                                                                   ccGGCATTAAGTAAGCAGTTGATGGAATAGACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAAATAATTGTTGCATCACCCGCCAATGCGTgg                                                                             >  4:19667/1‑137 (MQ=255)
                                                                      gCATTAAGTAAGCAGTTGATGGAATAGACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAAATAATTGTTGCATCACCCGCCAATGCGTGGCTTAATGCACATCAAc                                                             <  2:73756/150‑1 (MQ=255)
                                                                         ttAAGTAAGCAGTTGATGGAATAGACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAAATAATTGTTGCATCACCCGCCAATGCGTGGCTTAATGCACATCAACGGt                                                          <  3:30795/150‑1 (MQ=255)
                                                                              taagCAGTTGATGTAATAGACTTTTATCCACTTTAGTGCTGTTTACTGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAAATAATTGTTGCATCACCCGCCAATGCGTGGCTTAATGCACATCAACGGTTTGAc                                                     <  1:96331/150‑1 (MQ=255)
                                                                                      aattatttttcatatttatgattaatcggttggaaaACGGTCCTGATGACAGGACCGtt                                                                                                                                        <  4:73939‑M1/23‑1 (MQ=255)
                                                                                      aattatttttcatatttatgattaatcggttggaaaACGGTCCTGATGACAGGACCGtt                                                                                                                                        >  3:73939‑M1/37‑59 (MQ=255)
                                                                                                gACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAAATAATTGTTGCATCACCCGCCAATGCGTGGCTTAATGCACATCAACGGTTTGACGTACAGACCATTAAAGCa                                   <  1:61443/150‑1 (MQ=255)
                                                                                                  cTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAAATAATTGTTGCATCACCCGCCAATGCGTGGCTTAATGCACATCAACGGTTTGACGTACAGACCATTAAAGCAgt                                 <  3:67737/150‑1 (MQ=255)
                                                                                                                         aacggtcctgtcatcaggaccgtTTTCCAACCGATTAATCATAAATATGAAAAATAAtt                                                                                                     <  4:73939‑M2/36‑1 (MQ=255)
                                                                                                                         aacggtcctgtcatcaggaccgtTTTCCAACCGATTAATCATAAATATGAAAAATAAtt                                                                                                     >  3:73939‑M2/24‑59 (MQ=255)
                                                                                                                          acggtcctgtcatcaggaccgtTTTCCAACCGATTAATCATAAATATGAAAAATAATTGTTGCATCACCCGCCAATGCGTGGCTTAATGCACATCAACGGTTTGACGTACAGACCATTAAAGCAGTGTAGTAAGGCAAGTCCCTTCAaga         >  4:70778‑M2/23‑150 (MQ=255)
                                                                                                                          ACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAAATAATTGTTGCATCACCCGCCAATGCGTGGCTTAATGca                                                                    >  4:14267‑M1/1‑91 (MQ=255)
                                                                                                                          ACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAAATAATTGTTGCATCACCCGCCAATGCGTGGCTTAATGca                                                                    <  3:14267‑M1/91‑1 (MQ=255)
                                                                                                                                 TGATGACAGGACCGTTGTCCAACCGATTAACCATAAATATGAAAAATAATTGTTGCATCACCCGCCAATGCGTGGCTTAATGCACATCAACGGTTTGACCTACAGACCATTAAAGCAGTGTAGTAAGGCAAGTCCCTTCAAGAGTTATCg  <  2:77331‑M1/150‑1 (MQ=255)
                                                                                                                                  GATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAAATAAttgtt                                                                                                  <  4:56142‑M1/53‑1 (MQ=255)
                                                                                                                                  GATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAAATAAttgtt                                                                                                  >  3:56142‑M1/1‑53 (MQ=255)
                                                                                                                                                |                                                                                                                                      
ATGGGAATCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAGACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAAATAATTGTTGCATCACCCGCCAATGCGTGGCTTAATGCACATCAACGGTTTGACGTACAGACCATTAAAGCAGTGTAGTAAGGCAAGTCCCTTCAAGAGTTATCG  >  NC_000913_3_pae_tpiA/3719672‑3719950

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.