New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_014034 1303934 =80 (0.400)23 (0.120) 10/188 24.6 0.15 intergenic (+121/+36) urtE/RCAP_rcc01231 urea ABC transporter ATP‑binding protein UrtE/UbiH/UbiF/VisC/COQ6 family ubiquinone biosynthesis hydroxylase
?NC_014034 = 1478641 177 (0.840)intergenic (+129/+14) RCAP_rcc01372/RCAP_rcc01373 ABC transporter ATP‑binding protein/RpiR family transcriptional regulator
Rejected: Position hash score below cutoff.

GCTCGGCGCGCTTTATGCGTTCAAGCCGGTGCGCAAGACCCTGATGCGGGCGGGCTTGGGGATGCGCTGACAGGGTGCGGCCCTGCGGCCCGCCCCGAAAAGGGGG....................................................................................................  <  NC_014034/1304039‑1303934
....................................................................................................AGGGGGCGCTG.CCCCCTCTTGCCCTCTCGGCCAATTCACCCCCCGGGATATTTGAAGCAAGATAAATGAAAACCGCAGATCGTGCTTTCATCTTGCTCCAAATAT  <  NC_014034/1478641‑1478543
                                                                                                                                                                                                              
      CGCGCTTTATGCGTTCAAGCCGGTGCGCAAGACCCTGATGCGGGCGGGCTTGGGGATGCGCTGACAGGGTGCGGCCCTGCGGCCCGCCCCGAAAAGGGGGC                                                                                                     <  1:3029792/101‑1 (MQ=1)
        cgtTTTATGCGTTCAAGCCGGTGCGCAAGACCCTGATGCGGGCGGGCTTGGGGATGCGCTGACAGGGTGCGGCCCTGCGGCCCGCCCCGAAAAGGGGGCGC                                                                                                   <  1:3800748/98‑1 (MQ=1)
         GCTTTATGCGTTCAAGCCGGTGCGCAAGACCCTGATGCGGGCGGGCTTGGGGATGCGCTGACAGGGTGCGGCCCTGCGGCCCGCCCCGAAAAGGGGGCGCT                                                                                                  <  1:3037535/101‑1 (MQ=1)
          CTTTATGCGTTCAAGCCGGTGCGCAAGACCCTGATGCGGGCGGGCTTGGGGATGCGCTGACAGGGTGCGGCCCTGCGGCCCGCCCCGAAAAGGGGGCGCTG                                                                                                 >  2:2545846/1‑101 (MQ=1)
           TTTATGCGTTCAAGCCGGTGCGCAAGACCCTGATGCGGGCGGGCTTGGGGATGCGCTGACAGGGTGCGGCCCTGCGGCCCGCCCCGAAAAGGGGGCGCTG.C                                                                                               >  2:749433/1‑101 (MQ=1)
           TTTATGCGTTCAAGCCGGTGCGCAAGACCCTGATGCGGGCGGGCTTGGGGATGCGCTGACAGGGTGCGGCCCTGCGGCCCGCCCCGAAAAGGGGGCGCTG.C                                                                                               >  1:1466554/1‑101 (MQ=1)
            TTATGCGTTCAAGCCGGTGCGCAAGACCCTGATGCGGGCGGGCTTGGGGATGCGCTGACAGGGTGCGGCCCTGCGGCCCGCCCCGAAAAGGGGGCGgggcc                                                                                               >  2:495037/1‑96 (MQ=1)
            TTATGCGTTCAAGCCGGTGCGCAAGACCCTGATGCGGGCGGGCTTGGGGATGCGCTGACAGGGTGCGGCCCTGCGGCCCGCCCCGAAAAGGGGGCGCTG.CC                                                                                              <  1:1381043/101‑1 (MQ=1)
             TATGCGTTCAAGCCGGTGCGCAAGACCCTGATGCGGGCGGGCTTGGGGATGCGCTGACAGGGTGCGGCCCTGCGGCCCGCCCCGAAAAGGGGGCGCTG.CCC                                                                                             >  2:2336286/1‑101 (MQ=1)
              agGCGTTCAAGCCGGTGCGCAAGACCCTGATGCGGGCGGGCTTGGGGATGCGCTGACAGGGTGCGGCCCTGCGGCCCGCCCCGAAAAGGGGGCGCTG.CCCC                                                                                            <  1:3211655/99‑1 (MQ=1)
              ATGCGTTCAAGCCGGTGCGCAAGACCCTGATGCGGGCGGGCTTGGGGATGCGCTGACAGGGTGCGGCCCTGCGGCCCGCCCCGAAAAGGGGGCGCTG.CCCC                                                                                            >  1:552135/1‑101 (MQ=1)
                  GTTCAAGCCGGTGCGCAAGACCCTGATGCGGGCGGGCTTGGGGATGCGCTGACAGGGTGCGGCCCTGCGGCCCGCCCCGAAAAGGGGGCGCTG.CCCCCctc                                                                                        <  1:169244/101‑4 (MQ=1)
                  GTTCAAGCCGGTGCGCAAGACCCTGATGCGGGCGGGCTTGGGGATGCGCTGACAGGGTGCGGCCCTGCGGCCCGCCCCGAAAAGGGGGCGCTG.CCCCCctc                                                                                        <  1:1179547/101‑4 (MQ=1)
                   TTCAAGCCGGTGCGCAAGACCCTGATGCGGGCGGGCTTGGGGATGCGCTGACAGGGTGCGGCCCTGCGGCCCGCCCCGAAAAGGGGGCGCTG.CCCCCctct                                                                                       <  1:3506749/101‑5 (MQ=1)
                    TCAAGCCGGTGCGCAAGACCCTGATGCGGGCGGGCTTGGGGATGCGCTGACAGGGTGCGGCCCTGCGGCCCGCCCCGAAAAGGGGGCGCTG.CCCCCctctt                                                                                      <  2:2333683/101‑6 (MQ=1)
                      AAGCCGGTGCGCAAGACCCTGATGCGGGCGGGCTTGGGGATGCGCTGACAGGGTGCGGCCCTGCGGCCCGCCCCGAAAAGGGGGCGCTGCCCCCCTCTTGg                                                                                     <  1:3974830/101‑2 (MQ=1)
                      AAGCCGGTGCGCAAGACCCTGATGCGGGCGGGCTTGGGGATGCGCTGACAGGGTGCGGCCCTGCGGCCCGCCCCGAAAAGGGGGCGCTGCCCCCCTCTTGg                                                                                     >  2:2694938/1‑100 (MQ=1)
                      AAGCCGGTGCGCAAGACCCTGATGCGGGCGGGCTTGGGGATGCGCTGACAGGGTGCGGCCCTGCGGCCCGCCCCGAAAAGGGGGCGCTGCCCCCCTCTTGg                                                                                     >  2:3837480/1‑100 (MQ=1)
                        GCCGGTGCGCAAGACCCTGATGCGGGCGGGCTTGGGGATGCGCTGACAGGGTGCGGCCCTGCGGCCCGCCCCGAAAAGGGGGCGCTGCCCCCCTCTTGGCC                                                                                   <  2:206591/101‑1 (MQ=1)
                         CCGGTGCGCAAGACCCTGATGCGGGCGGGCTTGGGGATGCGCTGACAGGGTGCGGCCCTGCGGCCCGCCCCGAAAAGGGGGCGCTGCCCCCCTCTTGGCCT                                                                                  >  2:1689231/1‑101 (MQ=1)
                          CGGTGCGCAAGACCCTGATGCGGGCGGGCTTGGGGATGCGCTGACAGGGTGCGGCCCTGCGGCCCGCCCCGAAAAGGGGGCGCTGCCCCCCTCTTGGCCTt                                                                                 >  1:2517444/1‑100 (MQ=11)
                           GGTGCGCAAGACCCTGATGCGGGCGGGCTTGGGGATGCGCTGACAGGGTGCGGCCCTGCGGCCCGCCCCGAAAAGGGGGCGCTGCCCCCCTCTTGGCCTtc                                                                                <  2:1181236/101‑3 (MQ=31)
                           GGTGCGCAAGACCCTGATGCGGGCGGGCTTGGGGATGCGCTGACAGGGTGCGGCCCTGCGGCCCGCCCCGAAAAGGGGGCGCTGCCCCCCTCTTGGCCTtc                                                                                <  2:1631221/101‑3 (MQ=31)
                                                                                                                                                                                                              
GCTCGGCGCGCTTTATGCGTTCAAGCCGGTGCGCAAGACCCTGATGCGGGCGGGCTTGGGGATGCGCTGACAGGGTGCGGCCCTGCGGCCCGCCCCGAAAAGGGGG....................................................................................................  <  NC_014034/1304039‑1303934
....................................................................................................AGGGGGCGCTG.CCCCCTCTTGCCCTCTCGGCCAATTCACCCCCCGGGATATTTGAAGCAAGATAAATGAAAACCGCAGATCGTGCTTTCATCTTGCTCCAAATAT  <  NC_014034/1478641‑1478543

Base quality scores:  ATCG  < 3 ≤  ATCG  < 21 ≤  ATCG  < 29 ≤  ATCG  < 33 ≤  ATCG  < 40 ≤  ATCG