New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	18671 =	89 (1.110)	4 (0.050)	4/296	9.3	4.6%	intergenic (+16/‑44)	nhaA/nhaR	sodium‑proton antiporter/transcriptional activator of nhaA
	?	NC_000913	18691 =	82 (1.070)					intergenic (+36/‑24)	nhaA/nhaR	sodium‑proton antiporter/transcriptional activator of nhaA
Rejected: Position hash score below cutoff.

AAATAATTTGCCTTGCAGGCGCTCTTCCAGCGCTCGAATCTGTCCGGTAATGGTTTGTGGAGTTAAATAAAGCGCCTCCGCTGCGCCAACCACGGAACCTTCTTTATAGACATGCCAGAAGTAATACAAGTGGTTGTAATTGATATGAGACATGCTCATTTCTCTCCCTGATAACAATGAAAAGGGAGCCGTTTATGGCTCCC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/18873‑18671 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ggctcccTTTTCATTGTTATCAGGGAGAGAAATGAGCATGTCTCATATCAATTACAACCACTTGTATTACTTCTGGCATGTCTATAAAGAAGGTTCCGTGGTTGGCGCAGCGGAGGCGCTTTATTTAACTCCACAAACCATTACCGGACAGATTCGAGCGCTGGAAGAGCGCCTGCAAGGCAAATTATTTAAACGCAAGGG  >  NC_000913/18691‑18884                                                                                                                                                                                                                                                                                                                                                                                                               AAATAATTTGCCTTGCAGGCGCTCTTCCAGCGCTCGAATCTGTCCGGTAATGGTTTGTGGAGTTAAATAAAGCGCCTCCGCTGCGCCAACCACGGAACCTTCTTGATAGACATGCCAGAAGTAATACAAGTGGTTGTAATTGATATGAGACATGCTCATTTCTCTCCCTGATAACAATGAAAAGGGAGCCGTTTATGGCT                                                                                                                                                                                                       >  2:652936/1‑200                                                    GGTTTGTGGAGTTAAATAAAGCGCCTCCGCTGCGCCAACCACGGAACCTTCTTTATAGACATGCCAGAAGTAATACAAGTGGTTGTAATTGATATGAGACATGCTCATTTCTCTCCCTGATAACAATGAAAAGGGAGCCGTTTATGGCTCCCTTTTCATTGTTATCAGGGAGAGAAATGAGCATGTCTCATATCAATTAC                                                                                                                                                    >  2:210470/1‑200                                                           GGAGTTAAATAAAGCGCCTCCGCTGCGCCAACCACGGAACCTTCTTTATAGACATGCCAGAAGTAATACAAGTGGTTGTAATTGATATGAGACATGCTCATTTCTCTCCCTGATAACAATGAAAAGGGAGCCGTTTATGGC                                                                                                                                                                                                        <  4:194698/141‑1                                                                                                      CTTTATAGACATGCCAGAAGTAATACAAGTGGTTGTAATTGATATGAGACATGCTCATTTCTCTCCCTGATAACAATGAAAAGGGAGCCGTTTATGGC                                                                                                                                                                                                        <  1:187080/98‑1                                                                                                      CTTTATAGACATGCCAGAAGTAATACAAGTGGTTGTAATTGATATGAGACATGCTCATTTCTCTCCCTGATAACAATGAAAAGGGAGCCGTTTATGGC                                                                                                                                                                                                        >  4:187084/1‑98                                                                                                                       AAGTAATACAAGTGGTTGTAATTGATATGAGACATGCTCATTTCTCTCCCTGATAACAATGAAAAGGGAGCCGTTTATGGC                                                                                                                                                                                                        >  2:757019/1‑81                                                                                                                       AAGTAATACAAGTGGTTGTAATTGATATGAGACATGCTCATTTCTCTCCCTGATAACAATGAAAAGGGAGCCGTTTATGGC                                                                                                                                                                                                        <  3:756971/81‑1                                                                                                                                                    AGACATGCTCATTTCTCTCCCTGATAACAATGAAAAGGGAGCCGTTTATGGCTCCCTTTTCATTGTTATCAGGGAGAGAAATGAGCATGTCTCATATCAATTACAACCACTTGTATTACTTCTGGCATGTCTATAAAGAAGGTTCCGTGG                                                                                                      <  3:210469/150‑1                                                                                                                                                     GACATGCTCATTTCTCTCCCTGATAACAATGAAAAGGGAGCCGTTTATGG                                                                                                                                                                                                         <  1:66505/50‑1                                                                                                                                                     GACATGCTCATTTCTCTCCCTGATAACAATGAAAAGGGAGCCGTTTATGG                                                                                                                                                                                                         >  4:66507/1‑50                                                                                                                                                                                               GTTTATGGCTCCCTTTTCATTGTTATCAGGGAGAGAAATGAGCATGTCTCATATCAATTACAACCACTTGTATTACTTCTGGCATGTCTATAAAGAAGGTTCCGTGGTTGGCGCAGCGGAGGCGCTTTATTTAACTC                                                                        <  4:131393/137‑1                                                                                                                                                                                               GTTTATGGCTCCCTTTTCATTGTTATCAGGGAGAGAAATGAGCATGTCTCATATCAATTACAACCACTTGTATTACTTCTGGCATGTCTATAAAGAAGGTTCCGTGGTTGGCGCAGCGGAGGCGCTTTATTT                                                                             >  1:131391/1‑132                                                                                                                                                                                                      GCTCCCTTTTCATTGTTATCAGGGAGAGAAATGAGCATGTCTCATATCAATTACAACCACTTGTATTACTTCTGGCATGTCTATAAAGAAGGTTCCGTGGTTGGCGCAGCGGAGGCGCTTTATTTAACTCCACAAACCATTACCGGACAGATTCGAGCGCTGGAAGAGCGCCTGCAAGGCAAATTATTTAAACGCAAGGG  >  2:538331/1‑200                                                                                                                                                                                                      GCTCCCTTTTCATTGTTATCAGGGAGAGAAATGAGCATGTCTCATATCAATTACAACCACTTGTATTACTTCTGGCATGTCTATAAAGAAGGTTCCGTGGTTGGCGCAGCGGAGGCGCTTTATTTAACTCCACAAACCATT                                                             >  4:106983/1‑141                                                                                                                                                                                                        TCCCTTTTCATTGTTATCAGGGAGAGAAATGAGCATGTCTCATATCAATTACAACCACTTGTATTACTTCTGGCATGTCTATAAAGAAGGTTCCGTGGTTGGCGCAGCGGAGGCGCTTTATTTAACTCCACAAACCATTAC                                                           <  4:330075/141‑1                                                                                                                                                                                                                                                                                                                                                                                                               AAATAATTTGCCTTGCAGGCGCTCTTCCAGCGCTCGAATCTGTCCGGTAATGGTTTGTGGAGTTAAATAAAGCGCCTCCGCTGCGCCAACCACGGAACCTTCTTTATAGACATGCCAGAAGTAATACAAGTGGTTGTAATTGATATGAGACATGCTCATTTCTCTCCCTGATAACAATGAAAAGGGAGCCGTTTATGGCTCCC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/18873‑18671 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ggctcccTTTTCATTGTTATCAGGGAGAGAAATGAGCATGTCTCATATCAATTACAACCACTTGTATTACTTCTGGCATGTCTATAAAGAAGGTTCCGTGGTTGGCGCAGCGGAGGCGCTTTATTTAACTCCACAAACCATTACCGGACAGATTCGAGCGCTGGAAGAGCGCCTGCAAGGCAAATTATTTAAACGCAAGGG  >  NC_000913/18691‑18884

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ 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.