New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	3986604 =	48 (1.320)	4 (0.120)	4/264	4.6	8.3%	noncoding (173/207 nt)	glmZ	sRNA antisense activator of glmS mRNA, Hfq‑dependent
	?	NC_000913_3_pae_tpiA	3986634 =	44 (1.310)					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.

TCGCCTTAGTGCCTCATAAACTCCGGAATGACGCAGAGCCGTTTACGGTGCTTATCGTCCACTGACAGATGTCGCTTATGCCTCATCAGACACCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAACTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTCGCGACGCATAGCTGCA  >  NC_000913_3_pae_tpiA/3986458‑3986743                                                                                                                                                   |                                                                                                                                            tCGCATTAGTGCCTCATAAACACCGGAATGACGCAGAGCCGTTTACGGTGCTTATCGTCCACTGACAGATGTCGCTTATGCCTCATCAGACACCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAAc                                                                                                                                           <  2:128445/149‑1 (MQ=255)         gTGCCTCATAAACTCCGGAATGACGCAGAGCCGTTTACGGTGCTTATCGTCCACTGACAGATGTCGCTTATACCTCATCAGACACCATGGACACAACGTTGAGTAAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTc                                                                                                                                   >  1:38425/1‑149 (MQ=255)          tGCCTCATAAACTCCGGAATGACGCAGAGCCGTTTACGGTGCTTATCGTCCACTGACAGCTGTAGCGTATGCCTCATCAGACACCATGGCCACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTATTTTAACGCCTGCTcc                                                                                                                                  >  1:217890/1‑149 (MQ=255)               cATAAACTCCGGAATGACGCAGAGCCGTTTACGGTGCTTATCGTCCACTGACAGATGTCGCTTATGCCTCATCAGACACCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGtaat                                                                                                                             <  2:597722/149‑1 (MQ=255)                     cTCCGGAATGACGCAGAGCCGTTTACGGTGCTTATCGTCCACTGACAGATGTCGCTTATGCCTCATCAGACACCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGc                                                                                                                       >  2:383636/1‑149 (MQ=255)                      tCCGGAATGACGCAGAGCCGTTTACGGTGCTTATCGTCCACTGACAGATGTCGCTTATGCCTCATCAGACACCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAGTAGGACCa                                                                                                                      >  2:209877/1‑149 (MQ=255)                      tCCGGAATGACGCAGAGCCGTTTACGGTGCTTATCGTCCACTGACAGATGTCGCTTATGCCTCATCAGACACCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCa                                                                                                                      >  2:275517/1‑149 (MQ=255)                      tCCGGAATGACGCAGAGCCGTTTACGGTGCTTATCGTCCACTGACAGATGTCGCTTATGCCGCATCAGACACCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCa                                                                                                                      >  2:560451/1‑149 (MQ=255)                      tCCGGAATGACGCAGAGCCGTTTACGGTGCTTATCATCCACTGACAGATGTCGCTTATGCCTCATCAGACACCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCa                                                                                                                      >  1:317778/1‑149 (MQ=255)                       ccGGAATGACGCAGAGCCGTTTACGGTGCTTATCGTCCACTGACAGATGTCGCTTATGCCTCATCAGACACCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAg                                                                                                                     <  1:486421/149‑1 (MQ=255)                       ccGGAATGACGCAGAGCCGTTTACGGTGCTTATCGTCCACTGACAGATGTCGCTTATGCCTCATCAGACACCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAg                                                                                                                     <  1:19850/149‑1 (MQ=255)                         ggAATGACGCAGAGCCGTTTACGGTGCTTATCGTCCACTGACAGATGTCGCGTAACCCTAATCAGACAACATTGACACAACGTGGAGGGAAGCAACCACTCGTTGTCAATCAGACCTATTTTAACGCATACCCCGGAAGAGGAGCAGGc                                                                                                                   >  2:30431/1‑149 (MQ=255)                               aCGCAGAGCCGTTTACGGTGCTTATCGTCCACTGACAGATGTCGCTTATGCCTCATCAGACACCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACCGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGttttt                                                                                                             >  1:501217/1‑149 (MQ=255)                                cGCAGAGCCGTTTACGGTGCTTATCGTCCACTGACAGATGTCGCTTATGCCTCATCAGACACCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAAAGCAGGCGtttttt                                                                                                            >  1:476785/1‑149 (MQ=255)                                 gCATAGCCGTTTACGGTTCTTATCGTCCACTGAAAGATGTCGATTATGCCTCATCAGACACCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGttttttt                                                                                                           <  2:13335/149‑1 (MQ=255)                                 gCAGAGCCGTTTACGGTGCTTATCGTCCACTGACAGATGTCGCTTATGCCTCATCAGACACCATGGACACACCGTTGAGTGAAGCACACACTTGTTTTCATACAAACCTGTTCTAACGCCTGCTCCCTAATAAGAGCAGACGtttagta                                                                                                           >  1:369144/1‑145 (MQ=255)                                  acgagCCGTTTACGGTCCTTATCGTCCACTGACAGATGTCGCTTATGCCTCATCAGACACCATGGACACAACGTTTTGTGAAGCTCCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTa                                                                                                          <  1:165958/147‑1 (MQ=255)                                   agagCCGTTTACGGTGCTTATCGTCCACTGACAGATGTCGCTTATGCCTCATCAGACACCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTAt                                                                                                         <  1:590758/149‑1 (MQ=255)                                   agagCCGTTTACGGTGCTTATCGTCCACTGACAGATGTCGCTTATGCCTCATCAGACACCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTAt                                                                                                         <  2:306766/149‑1 (MQ=255)                                               ggTGCTTATCGTCCACTGACAGATGTCGCTTATGCCTCATCAGACACCATGGACACAACGTTGAGTGAAGCACCACCTTGTTGTCATACAGACCCGTTTTAACGCCTGCTTCGTAATAAGAGCAGGCGTTTTTTTATTTTTCAAGaaag                                                                                             >  1:555154/1‑147 (MQ=255)                                                       tCGTCCACTGACAGATGTCGCTTATGCCTCATCAGACACCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAAGGCCTGCTCCGTAATAAGAGCAGGCGTTTATTTAGGTATCAGGAAGGCCCCGCAg                                                                                     >  2:11200/1‑149 (MQ=255)                                                          tCCACTGACAGATGTCGCTTATGCCTCATCAGACACCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGGAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTg                                                                                  >  1:205076/1‑149 (MQ=255)                                                          tCCACTGACAGATGTCGCTTATGCCTCATCAGACACCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTg                                                                                  >  2:505819/1‑149 (MQ=255)                                                            cACTGACAGATGTCGCTTATGCCTCATCAGACACCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCt                                                                                >  1:496475/1‑149 (MQ=255)                                                                     aTGTCGCTTATGCCTCATCAGACACCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCgg                                                                       <  1:329761/149‑1 (MQ=255)                                                                         ggCTTATGCCTCATCAGACACCATGGTCACAAGTTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCGCCGTAATAATAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGATGTGCTTGCCTCCGGGTga                                                                   <  2:216045/148‑1 (MQ=255)                                                                            ttATGCCTCATCAGACACCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGaa                                                                <  2:317778/149‑1 (MQ=255)                                                                            tgaTGCCTCAGCAGACACCATGGGCACAACGTTGAGTGAAGCAGCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTAACAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGaa                                                                <  2:476785/147‑1 (MQ=255)                                                                                 gctggtgaGACACGATGGGCACAGCGTTGAGTGAAGCGCCCACTTGGTGTCATACAGGCCTGTTTTAACGGCTGCGCCGTAATAAGAGCGGGCGGTGTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAac                                                           <  1:10710/142‑1 (MQ=255)                                                                                                tGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAg                                                                                     <  2:158627/108‑1 (MQ=255)                                                                                                tGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAg                                                                                     >  1:158627/1‑108 (MQ=255)                                                                                                  gACACAACGTTGAGCGAAGCCCCCACTTGTTGCCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAACTACTGTGGCGGGTTAtt                                          <  1:277565/149‑1 (MQ=255)                                                                                                    cacaACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAACTACTGTGGCGGGTTATTCt                                        <  1:429852/149‑1 (MQ=255)                                                                                                    cacaACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATCTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAACTATTGTGGCGGGTTATTCt                                        <  1:560451/149‑1 (MQ=255)                                                                                                     acaACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGAGCCCGGAGGTGCTTGCCTCCGTGTAAGAAGGAACGACCGTTGCGGGTTATTCtc                                       >  2:123838/1‑148 (MQ=255)                                                                                                        aCGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAACTACTGTGGCGGGTTATTCTGCaa                                    <  2:501217/149‑1 (MQ=255)                                                                                                         cGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAACTACTGTGGCGGGTTATTCTGCAAc                                   >  1:269929/1‑149 (MQ=255)                                                                                                             gAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTACCTACGGGTGAGCAGGAACAACACAGGAGGGGTATTGTGAAACGtga                               >  1:531456/1‑147 (MQ=255)                                                                                                                tGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAACTACTGTGGCGGGTTATTCTGCAACGTTAACa                            >  2:622687/1‑149 (MQ=255)                                                                                                                        ccACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCTGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAACTACTGTGGCGGGTTATTCTGCAACGTTAACACCAAACCg                    >  2:514050/1‑149 (MQ=255)                                                                                                                          aCTTGTTGTCATACAGACGTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAACTACTGTGGCTGGTTATTCTGCAACGTTAACATCAAACCGTc                  <  1:275517/149‑1 (MQ=255)                                                                                                                            ttgttgTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAACTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTcgc                <  1:383636/149‑1 (MQ=255)                                                                                                                            ttgttgTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAACTACTGTGGCGGGTTATTCTGCAACCTTAAAATCAAACCgagtc                >  1:484087/1‑145 (MQ=255)                                                                                                                             tgttgtCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAACTACTGTGGCGGGTTATTCTGCAACGTTAACATCAACCCGTcgcg               >  1:260298/1‑149 (MQ=255)                                                                                                                               ttgtCATACAGACCTGTTTTAACGCCTGCCCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAACTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTCGCGAc             >  2:524243/1‑149 (MQ=255)                                                                                                                                 gtCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAACTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTCGCGACGc           >  1:465698/1‑149 (MQ=255)                                                                                                                                          aCCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAACTACTGTGGCGGGTTATTCTGCAACGTGAACATCAAACCATCCGGACGCATACATGCa  >  1:518459/1‑149 (MQ=255)                                                                                                                                          aCCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAACTACTGTGGCGGGGTATTCTGCAACGTTAAAATCAAACCGTCGCGACGCATAGCTGCa  >  1:518466/1‑149 (MQ=255)                                                                                                                                                   |                                                                                                                                            TCGCCTTAGTGCCTCATAAACTCCGGAATGACGCAGAGCCGTTTACGGTGCTTATCGTCCACTGACAGATGTCGCTTATGCCTCATCAGACACCATGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAACTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTCGCGACGCATAGCTGCA  >  NC_000913_3_pae_tpiA/3986458‑3986743

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ 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.