New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 884917	126 (0.800)	22 (0.160)	9/160	NT	15.9%	intergenic (+12/+29)	mdfA/ybjH	multidrug efflux system protein/uncharacterized protein
	?	NC_000913	= 884930	119 (0.840)					intergenic (+25/+16)	mdfA/ybjH	multidrug efflux system protein/uncharacterized protein

TTTAATCTCTTCAACCTTGTCAACGGAATTTTGTGGCTGTCGCTGATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATGCCTGA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/884810‑884917 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑aatgcctgaTCGCACAAAGCAGTCAGGCATTTTTTTACCCTTCGTGAGAATTTCCCATCTGTTTATCTTTTAAAAAGATAACCATCAGCGACAGCCACAAAATTCCGT  <  NC_000913/884930‑884832                                                                                                                                                                                                                 TTTAATCTCTTCAACCTTGTCAACGGAATTTTGTGGCTGTCGCTGATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAA                                                                                                             >  2:1926514/1‑100   TAATCTCTTCAACCTTGTCAACGGAATTTTGTGGCTGTCGCTGATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTCAAGAAGGGTAAAAAAAT                                                                                                           <  1:3411828/100‑1    AATCTCTTCAACCTTGTCAACGGAATTTTGTGGCTGTCGCTGATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATG                                                                                                          <  2:4119177/100‑1    AATCTCTTCAACCTTGTCAACGGAATTTTGTGGCTGTCGCTGATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATG                                                                                                          <  2:1514171/100‑1    AATCTCTTCAACCTTGTCAACGGAATTTTGTGGCTGTCGCTGATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATG                                                                                                          <  2:3433719/100‑1     ATCTCTTCAACCTTGTCAACGGAATTTTGTGGCTGTCGCTGATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATGC                                                                                                         <  1:3745892/100‑1     ATCTCTTCAACCTTGTCAACGGAATTTTGGGGCTGTCGCTGATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAAT                                                                                                           <  2:1826460/98‑1      TCTCTTCAACCTTGTCAACGGAATTTTGTGGCTGTCGCTGATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATGCC                                                                                                        <  2:4369822/100‑1      TCTCTTCAACCTTGTCAACGGAATTTTGTGGCTGTCGCTGATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATGCC                                                                                                        <  1:2292370/100‑1      TCTCTTCAACCTTGTCAACGGAATTTTGTGGCTGTCGCTGATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATGCC                                                                                                        <  2:3959834/100‑1             AACCTTGTCAACGGAATTTTGTGGCTGTCGCTGATGGTTATCTTTTTAAAATATAAACAGATGGGAAATTATTACTAAGTGTAAAAAAATGCCTGA                                                                                                     >  1:1658655/1‑96                            agTTTGTTGCTGTCGCTGATAGTTATTTTTTTAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATGCCTGATCGCACAAAGCAGTCAGGC                                                                                  <  1:3799724/98‑1                            ATTTTGTGGCTGTCGCTGATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATGCCTGATCGCACAAAGCAGTCAGGC                                                                                  <  2:3372895/100‑1                               TTGTGGCTGTCGCTGATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATGCCTGATCGCACAAAGCAGTCAGGCATT                                                                               <  1:4083475/100‑1                               TTGTGGCTGTCGCTGATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATGCCTGATCGCACAAAGCAGTCAGGCATT                                                                               <  2:1894620/100‑1                               TTGTGGCTGTCGCTGATGGTTATCTTCTTAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATGCCTGATCGCACAAAGCAGTCAGGCATT                                                                               <  2:2163728/100‑1                                TGTGGCTGTCGCTGATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATGCCTGATCGCACAAAGCAGTCAGGCATTT                                                                              <  2:3877405/100‑1                                TGTGGCTGTCGCTGATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATGCCTGATCGCACAAAGCAGTCAGGCATTT                                                                              <  2:4054471/100‑1                                 GTGGCTGTCGCTGATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATGCCTGATCGCACAAAGCAGTCAGGCATTTT                                                                             <  2:2342525/100‑1                                 GTGGCTGTCGCTGATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTCACGAAGAGTAAAAAAATGCCTGATCGCACAAAGCAGTCAGGCATTTT                                                                             <  1:160869/100‑1                                 GTGGCTGTCGCTGATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTAAAAAAAAGAAAAAAAATGCCTGATCGCACAAAGCAGTCAGGCATT                                                                               <  1:156580/98‑1                                  TGGCTGTCGCTGATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATGCCTGATCGCACAAAGCAGTCAGGCATTTTT                                                                            <  2:1382497/100‑1                                   GGCTGTCGCTGATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATGCCTGATCGCACAAAGCAGTCAGGCATTTTTT                                                                           <  2:3151449/100‑1                                   GGCTGTCGCTGATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATGCCTGATCGCACAAAGCAGTCAGGCATTTTTT                                                                           <  2:1171917/100‑1                                   GGCTGTCGCTGATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATGCCTGATCGCACAAAGCAGTCAGGCATTTTTT                                                                           <  2:3922493/100‑1                                     CTGTCGCTGATGGTTATCTTTTGAAAAGATAAACAGATGGGAAATTCTCACGAAGTGTAAAAAAATGCCTGATCGCACAAAGCAGTCAGGCATTTTT                                                                            <  1:1484617/97‑1                                      TGTCGCTGATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATGCCTGATCGCACAAAGCAGTCAGGCATTTTTTTAC                                                                        <  2:4398245/100‑1                                       GTCGCTGATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATGCCTGATCGCACAAAGCAGTCAGGCATTTTTTTACC                                                                       <  2:3848611/100‑1                                       GTCGCTGATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATGCCTGATCGCACAAAGCAGTCAGGCATTTTTTTACC                                                                       <  2:78146/100‑1                                       GTCGCTGATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATGCCTGATCGCACAAAGCAGTCAGGCATTTTTTTACC                                                                       <  1:2257415/100‑1                                       GTCGCTGATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATGCCTGATCGCACAAAGCAGTCAGGCATTTTTTTACC                                                                       <  2:1224768/100‑1                                        TCGCTGATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATGCCTGATCGCACAAAGCAGTCAGGCATTTTTTTACC                                                                       <  1:2913032/99‑1                                           CTGATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATGCCTGATCGCACAAAGCAGTCAGGCATTTTTTTACCCTTC                                                                   <  2:3724485/100‑1                                                                                                    AATGCCTGATCGCACAAAGCAGTCAGGCATTTTTTTACCCTTCGTGAGAATTTCCCATCTGTTTATCTTTTAAAAAGATAACCATCAGCGACAGCCACAA          <  1:1796929/100‑1                                                                                                     ATGCCTGATCGCACAAAGCAGTCAGGCATTTTTTTACCCTTCGTGAGAATTTCCCATCTGTTTATCTTTTAAAAAGATAACCATCAGCGACAGCCACAAA         <  2:350819/100‑1                                                                                                        CCTGATCGCACAAAGCAGTCAGGCATTTTTTTACCCTTCGTGAGAATTTCCCATCTGTTTATCTTTTAAAAAGATAACCATCAGCGACAGCCACAAAATT      >  1:3997345/1‑100                                                                                                        CCTGATCGCACAAAGCAGTCAGGCATTTTTTTACCCTTCGTGAGAATTTCCCATCTGTTTATCTTTTAAAAAGATAACCATCAGCGACAGCCACAAAATT      >  2:3099333/1‑100                                                                                                         CTGATCGCACAAAGCAGTCAGGCATTTTTTTACCCTTCGTGAGAATTTCCCATCTGTTTATCTTTTAAAAAGATAACCATCAGCGACAGCCACAAAATTC     <  2:3081282/100‑1                                                                                                            ATCGCACAAAGCAGTCAGGCATTTTTTTACCCTTCGTGAGAATTTCCCATCTGTTTATCTTTTAAAAAGATAACCATCAGCGACAGCCACAAAATTCCGT  <  2:240146/100‑1                                                                                                                                                                                                                 TTTAATCTCTTCAACCTTGTCAACGGAATTTTGTGGCTGTCGCTGATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATGCCTGA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/884810‑884917 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑aatgcctgaTCGCACAAAGCAGTCAGGCATTTTTTTACCCTTCGTGAGAATTTCCCATCTGTTTATCTTTTAAAAAGATAACCATCAGCGACAGCCACAAAATTCCGT  <  NC_000913/884930‑884832

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.