New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	3986604 =	42 (1.160)	5 (0.150)	5/260	4.1	11.0%	noncoding (173/207 nt)	glmZ	sRNA antisense activator of glmS mRNA, Hfq‑dependent
	?	NC_000913_3_pae_tpiA	3986634 =	42 (1.260)					noncoding (203/207 nt)	glmZ	sRNA antisense activator of glmS mRNA, Hfq‑dependent
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

CTTAGTGCCTCATAAACTCCGGAATGACGCAGAGCCGTTTACGGTGCTTATCGTCCACTGACAGATGTCGCTTATGCCTCATCAGACACCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAACTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTCGCGACGCATAGCTGCAGCTTC  >  NC_000913_3_pae_tpiA/3986462‑3986748                                                                                                                                               |                                                                                                                                                 cTTAGTGCCTCATAAACTCCGGAATGACGCAGAGCCGTTTACGGTGCTTATCGTCCACTGACAGATGTCGCTTATGCCTCATCAGACACCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCt                                                                                                                                            <  1:258747/149‑1 (MQ=255)                 cTCCGGAATGACGCAGAGCCGTTTACGGTGCTTATCGTCCACTGACAGATGTCGCTTATGCCTCATCAGACACCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGc                                                                                                                            >  1:62941/1‑149 (MQ=255)                    cGGAATGACGCAGAGCCGTTTACGGTGCTTATCGTCCACTGACAGATGTCGCTTATGTCTCATCAGACACCATTGACACAACGTTGATTTAAGCACCCACTTGTTGTCATAAAAACCTTATTTCACTCCTGCCCCGTTCTAAGAGCAgt                                                                                                                         >  2:344586/1‑148 (MQ=255)                      gAATGACGCAGAGCCGTTTACGGTGATTATAGTCCACTGACAGATGTCGCTTATGCCTCATCAGACACCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCGGTTTTAACGCCTGCTCCGTAATAAGAGCAGCCg                                                                                                                       >  1:154262/1‑149 (MQ=255)                         tGACGCAGAGCCGTTTACGGTGCTTATCGTCCACTGACAGATGTCGCTTATGCCTCATCAGACACCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGttt                                                                                                                    >  2:529369/1‑149 (MQ=255)                          gACGCAGAGCCGTTTACGGTGCTTATCGTCCACTGACAGATGTCGCTTATGCCTCATCAGACACCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAg                                                                                                                          <  1:328581/142‑1 (MQ=255)                          gACGCAGAGCCGTTTACGGTGCTTATCGTCCACTGACAGATGTCGCTTATGCCTCATCAGACACCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAg                                                                                                                          >  2:328581/1‑142 (MQ=255)                              cAGAGCCGTTTACGGTGGTTATCGTCCACTGACAGATGTCGCTTATGCCTCATCAGACACCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTa                                                                                                               <  2:112486/149‑1 (MQ=255)                               agagCCGTTTACGGTGCTTATCGTCCACTGACAGATGTCGCTTATGCCTCATCAGACACCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTAt                                                                                                              <  1:511955/149‑1 (MQ=255)                               agagCCGTTTACGGTGCTTATCGTCCACTGACAGATGTCGCTTATGCCTCATCAGACACCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTAt                                                                                                              <  1:424707/149‑1 (MQ=255)                                      tttACGGTGCTTATCGTCCACTGACAGATGTCGCTTATGCGTCATCAGACACCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTTTGTTTCAg                                                                                                       >  2:446218/1‑149 (MQ=255)                                      tttACGGTGCTTATCGTCCACTGACAGATGTCGCTTATGCCTCATCAGACACCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTTTCAg                                                                                                       >  2:122373/1‑149 (MQ=255)                                                  aTCGTCCACTGACAGATGTCGCTTATGCCTCATCAGACACCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGa                                                                                           >  2:286258/1‑149 (MQ=255)                                                   tCGTCCACTGGCAGATGTCGCTTATACCTCATCAGACACCATGGACGCAACGTTGAGTGAAGCACCAACTTGTTGTCATACAGAACTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTCTTTATGTATCAGGAAGGCTCCGGAg                                                                                          >  1:575050/1‑149 (MQ=255)                                                   tCGTCCACTGACAGATGTCGCTTATGCCTCATCAGACACCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGATCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAg                                                                                          >  2:543779/1‑149 (MQ=255)                                                     gTCCACTGACAGATGTCGCTTATGCCTCATCAGACACCATGGACACAACGTTGAGTGAAGCACCCACTTCTTGTCATACCGACCTGTTTTAACGCCTGCTCCGTAATAATAGCCTGCGTTTTTTTATGTATCAGGAAAGCCCCGGAGGt                                                                                        >  2:230447/1‑149 (MQ=255)                                                            gACAGATGTCGCTTATGCCTCATCAGACACCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGcc                                                                                 <  1:558051/149‑1 (MQ=255)                                                                   gTCGCTTATGCCTCATCAGACACCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGt                                                                          <  1:543779/149‑1 (MQ=255)                                                                   gTCGCTTATGCCTCATCAGACACCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGt                                                                          >  1:38760/1‑149 (MQ=255)                                                                       cTTATGCCTCATCAGACACCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTgaga                                                                      >  1:87524/1‑149 (MQ=255)                                                                          aTGCCTAATCAGACACCATGGACACAACGTTGAGTGAAGCACCAACTTGTTGTCATACAGACCTGTTTTAACGCCTGCCCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAgg                                                                   <  1:381909/149‑1 (MQ=255)                                                                              cTCATCAGACACCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCCCCGAGTGAGAAGGAact                                                               >  2:324675/1‑149 (MQ=255)                                                                                      acacCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGTACTACTGTGGc                                                       <  1:400182/149‑1 (MQ=255)                                                                                      acacCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAGCTACTGTGGc                                                       >  1:488786/1‑149 (MQ=255)                                                                                      acacCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGATCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAACTACTGTGGc                                                       >  2:390801/1‑149 (MQ=255)                                                                                        acCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAACTACTGTGGCgg                                                     >  1:614032/1‑149 (MQ=255)                                                                                                cacaACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAACTACTGTGGCGGGTTATTCt                                             <  2:506819/149‑1 (MQ=255)                                                                                                cacaACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAACTACTGTGGCGGGTTATTCt                                             >  1:548156/1‑149 (MQ=255)                                                                                                  caACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAACTACTGTGGCGGGTTATTCTGc                                           >  1:186774/1‑149 (MQ=255)                                                                                                          aGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGAGTGATAAGGAACTACTGTGGCGGGTTATTCTGCAACGTTaa                                   <  2:137347/149‑1 (MQ=255)                                                                                                           gTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGc                                                                                                                            >  1:395014/1‑59 (MQ=255)                                                                                                           gTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGc                                                                                                                            <  2:395014/59‑1 (MQ=255)                                                                                                            tGAAGCACCCACTTGTTGTCAGACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAACTACTGTGGCGGGTTATTCTGCAACGTTAACa                                 <  1:557865/149‑1 (MQ=255)                                                                                                                 cACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAACTACTGTGGCGGGTTATTCTGCAACGTTAACATCaaa                            <  1:421624/149‑1 (MQ=255)                                                                                                                   cccACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAACTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAAcc                          <  1:230447/149‑1 (MQ=255)                                                                                                                    ccACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAACTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCg                         >  1:599330/1‑149 (MQ=255)                                                                                                                      aCTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAACTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTc                       <  1:387091/149‑1 (MQ=255)                                                                                                                        ttgttgTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAACTACTGTGGCgg                                                     >  1:497299/1‑117 (MQ=255)                                                                                                                        ttgttgTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAACTACTGTGGCgg                                                     <  2:497299/117‑1 (MQ=255)                                                                                                                             gtCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAACTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTCGCGACGc                <  2:87524/149‑1 (MQ=255)                                                                                                                                       tcTGTTTGAACGCTTTCTCCGTACTAAGAGCAGGCGTTTTTTTATGTACCAGGAAGGCCCCGGAGGTGCTTGCCCCCGGGTGAGAAGGAACTACTGTGGCGGATTATTCTGCAACGTTAACATCAAACCGTCGCGACGCATAGCTGCAg      <  1:344586/148‑1 (MQ=255)                                                                                                                                           ttttAACGCCCGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGATCTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTCGCGACGCATAGCTGCAGcttc  <  1:136239/149‑1 (MQ=255)                                                                                                                                               |                                                                                                                                                 CTTAGTGCCTCATAAACTCCGGAATGACGCAGAGCCGTTTACGGTGCTTATCGTCCACTGACAGATGTCGCTTATGCCTCATCAGACACCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAACTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTCGCGACGCATAGCTGCAGCTTC  >  NC_000913_3_pae_tpiA/3986462‑3986748

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ 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.