New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 3527476	41 (0.800)	3 (0.060)	3/240	NT	6.8%	coding (1008/2136 nt)	yrfF	putative RcsCDB‑response attenuator, inner membrane protein
	?	NC_000913	= 3527515	43 (0.890)					coding (1047/2136 nt)	yrfF	putative RcsCDB‑response attenuator, inner membrane protein

GGTCTATCCCGCACACTGGCAGCCATACATTGCTCAGGATCTCGGTCAACAAACCGATATCGATATCTATCTCGACCGCCATGTAGTGCGTCAGGGACGATATCTTTCGCTGCATGATGAAGTAAAAAACTTTCCGTTACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGGTGCTGTTTATGCTGTTATTCTGGATCCCGCTGGATATGCCGCTGAAATTCACTCTCTCATGGATGAAAGGCGCGCAGACCATTGAAGCCACCAGCGTAAAACA  >  NC_000913/3527332‑3527619                                                                                                                                                 |                                                                                                                                                ggTCTATCCCGCACACTGGCAGCCATACATTGCTCAGGATCTCGGTCAACAAACCGATATCGATATCTATCTCGACCGCCATGTAGTGCGTCAGGGACGATATCTTTCGCTGCATGATGAAGTAAAAAACTTTCCGTTACAGCACTGGc                                                                                                                                             <  3:252962/149‑1 (MQ=255)  gTCTATCCCGCACACTGGCAGCCATACATTGCTCAGGATCTCGGTCAACAAACCGATATCGATATCTATCTCGACCGCCATGTAGTGCGTCAGGGACGATATCTTTCGCTGCATGATGAAGTAAAAAACTTTCCGTTACAGCACTGGCt                                                                                                                                            >  4:282155/1‑149 (MQ=255)     tATCCCGCACACTGGCAGCCATACATTGCTCAGGATCTCGGTCAACAAACCGATATCGATATCTATCTCGACCGCCATGTAGTGCGTCAGGGACGATATCTTTCGCTGCATGATGAAGTAAAAAACTTTCCGTTACAGCACTGGCt                                                                                                                                            >  4:433770/1‑146 (MQ=255)     tATCCCGCACACTGGCAGCCATACATTGCTCAGGATCTCGGTCAACAAACCGATATCGATATCTATCTCGACCGCCATGTAGTGCGTCAGGGACGATATCTTTCGCTGCATGATGAAGTAAAAAACTTTCCGTTACAGCACTGGCt                                                                                                                                            <  3:433770/146‑1 (MQ=255)      aTCCCGCACACTGGCAGCCATACATTGCTCAGGATCTCGGTCAACAAACCGATATCGATATCTATCTCGACCGCCATGTAGTGCGTCAGGGACGATATCTTTCGCTGCATGATGAAGTAAAAAACTTTCCGTTACAGCACTGGCTgcgc                                                                                                                                        >  1:456301/1‑149 (MQ=255)             acacTGGCAGCCATACATTGCTCAGGATCTCGGTCAACAAACCGATATCGATATCAATCTCGACCGCCATGTAGTGCGTCAGGGACGATATCTTTCGCTGCATGATGAAGTAAAAAACTTTCCGTTACAGCACTGGCTGCGCAGTACGa                                                                                                                                 <  4:428039/149‑1 (MQ=255)                   gCAGCCATACATTGCTCAGGATCTCGGTCAACAAACCGATATCGATATCTATCTCGACCGCCATGTAGTGCGTCAGGGACGATATCTTTCGCTGCATGATGAAGTAAAAAACTTTCCGTTACAGCACTGGCTGCGCAGTACGATTATCg                                                                                                                           >  4:312272/1‑149 (MQ=255)                                  tCAGGATCTCGGTCAACAAACCGATATCGATATCTATCTCGACCGCCATGTAGTGCGTCAGGGACGATATCTTTCGCTGCATGATGAAGTAAAAAACTTTCCGTTACAGCACTGGCTGCGCAGTACGATTATc                                                                                                                            <  1:470954/133‑1 (MQ=255)                                  tCAGGATCTCGGTCAACAAACCGATATCGATATCTATCTCGACCGCCATGTAGTGCGTCAGGGACGATATCTTTCGCTGCATGATGAAGTAAAAAACTTTCCGTTACAGCACTGGCTGCGCAGTACGATTATc                                                                                                                            >  2:470954/1‑133 (MQ=255)                                          tcGGTCAACAAACCGATATCGATATCTATCTCGACCGCCATGTAGTGCGTCAGGGACGATATCTTTCGCTGCATGATGAAGTAAAAAACTTTCCGTTACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGTTGCTGgtgctg                                                                                                    <  3:123959‑M2/149‑7 (MQ=255)                                          tcGGTCAACAAACCGATATCGATATCTATCTCGACCGCCATGTAGTGCGTCAGGGACGATATCTTTCGCTGCATGATGAAGTAAAAAACTTTCCGTTACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGgtgctg                                                                                                    <  3:67685‑M2/149‑7 (MQ=255)                                            ggTCAACAAACCGATATCGATATCTATCTCGACCGCCATGTAGTGCGTCAGGGACGATATCTTTCGCTGCATGATGAAGTAAAAAACTTTCCGTTACAGCACTGGCTGCGCAGTACGATTCTCGCTGCGTGCTGGCTGCTGGTGATGtt                                                                                                  <  2:456301/149‑1 (MQ=255)                                             gTCAACAAACCGATATCGATATCTATCTCGACCGCCATGTAGTGCGTCAGGGACGATATCTTTCGCTGCATGATGAAGTAAAAAACTTTCCGTTACAGCACcagcagcgagcccgcagcgataatcgtactgcgcagccagtgctgtaa                                                                                                 <  2:232617‑M1/149‑49 (MQ=255)                                             gTCAACAAACCGATATCGATATCTATCTCGACCGCCATGTAGTGCGTCAGGGACGATATCTTTCGCTGCATGATGAAGTAAAAAACTTTCCGTTACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGGTGCTGttt                                                                                                 <  4:84855/149‑1 (MQ=255)                                               caacaaACCGATATCGATATCTATCTCGACCGCCATGTAGTGCGTCAGGGACGATATCTTTCGCTGCATGATGAAGTAAAAAACTTTCCGTTACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGGTGCTGTTTAt                                                                                               <  3:282155/149‑1 (MQ=255)                                                 acaaACCGATATCGATATCTATCTCGACCGCCATGTAGTGCGTCAGGGACGATATCTTTCGCTGCATGATGAAGTAAAAAACTTTCCGTTACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGGTGCTGTTTATGc                                                                                             <  2:447128/149‑1 (MQ=255)                                                   aaaCCGATATCGATATCTATCTCGACCGCCATGTAGTGCGTCAGGGACGATATCTTTCGCTGCATGATGAAGTAAAAAACTTTCCGTTACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGGTGCTGTTTATGCTg                                                                                           >  4:406699/1‑149 (MQ=255)                                                    aaCCGATATCGATATCTATCTCGACCGCCATGTAGTGCGTCAGGGACGATATCTTTCGCTGCATGATGAAGTAAAAAACTTTCCGTTACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGGTGCTGTTTATGCTGt                                                                                          <  4:438316/149‑1 (MQ=255)                                                     aCCGATATCGATATCTATCTCGACCGCCATGTAGTGCGTCAGGGACGATATCTTTCGCTGCATGATGAAGTAAAAAACTTTCCGTTACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGGTGCTGTTTATGCTGtt                                                                                         >  4:430491/1‑149 (MQ=255)                                                     aCCGATATCGATATCTATCTCGACCGCCATGTAGTGCGTCAGGGACGATATCTTTCGCTGCATGATGAAGTAAAAAACTTTCCGTTACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGGTGCTGTTTATGCTGtt                                                                                         <  3:312272/149‑1 (MQ=255)                                                        gatatcgatatcTATCTCGACCGCCATGTAGTGCGTCAGGGACGATATCTTTCGCTGCATGATGAAGTAAAAAACTTTCCGTTACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGGTGCTGTTTATGCTGTTAtt                                                                                      >  4:338073/1‑149 (MQ=255)                                                         atatcgatatcTATCTCGACCGCCATGTAGTGCGTCAGGGACGATATCTTTCGCTGCATGATGAAGTAAAAAACTTTCCGTTACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGGTGCTGTTTATGCTGTTATTc                                                                                     <  1:186743/149‑1 (MQ=255)                                                              gatatcTATCTCGACCGCCATGTAGTGCGGCAGGGACGATATCTTTCGCTGCATGATGAAGTAAAAAACTTTCCGTTACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGGTGCTGTTTATGCTGTTATTCTGGAt                                                                                <  3:430491/149‑1 (MQ=255)                                                                tatctatcTCGACCGCCATGTAGTGCGTCAGGGACGATATCTTTCGCTGCATGATGAAGTAAAAAACTTTCCGTTACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGGTGCTGTTTATGCTGTTATTCTGGATcc                                                                              >  2:475354/1‑149 (MQ=255)                                                                    tatctCGACCGCCATGTAGTGCGTCAGGGACGATATCTTTCGCTGCATGATGAAGTAAAAAACTTTCCGTTACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGGTGCTGTTTATGCTGTTATTCTGGATCCCGCt                                                                          >  1:66236/1‑149 (MQ=255)                                                                      tctcGACCGCCATGTAGTGCGTCAGGGACGATATCTTTCGCTGCATGATGAAGTAAAAAACTTTCCGTTACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGGTGCTGTTTATGCTGTTATTCTGGATCCCGCTgg                                                                        >  4:334562/1‑149 (MQ=255)                                                                         cGACCGCCATGTAGTGCGTCAGGGACGATATCTTTCGCTGCATGATGAAGTAAAAAACTTTCCGTTACAGCACcagcagcgagcccgcagcgataatcgtactgcgcagccagtg                                                                                                       <  3:187209‑M1/115‑43 (MQ=255)                                                                         cGACCGCCATGTAGTGCGTCAGGGACGATATCTTTCGCTGCATGATGAAGTAAAAAACTTTCCGTTACAGCACcagcagcgagcccgcagcgataatcgtactgcgcagccagtg                                                                                                       >  4:187209‑M1/1‑73 (MQ=255)                                                                         cGACCGCCATGTAGTGCGTCAGGGACGATATCTTTCGCTGCATGATGAAGTAAAAAACTTTCCGTTACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGTTGCTGGTGCTGTTTATGCTGTTATTCTGGATCCCGCTGGata                                                                     <  4:123959/149‑1 (MQ=255)                                                                          gACCGCCATGTAGTGCGTCAGGGACGATATCTTTCGCTGCATGATGAAGTAAAAAACTTTCCGTTACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCgc                                                                                                               <  3:24789/106‑1 (MQ=255)                                                                          gACCGCCATGTAGTGCGTCAGGGACGATATCTTTCGCTGCATGATGAAGTAAAAAACTTTCCGTTACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCgc                                                                                                               >  4:24789/1‑106 (MQ=255)                                                                           aCCGCCATGTAGTGCGTCAGGGACGATATCTTTCGCTGCATGATGAAGTAAAAAACTTTCCGTTACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGGTGCTGTTTATGCTGTTATTCTGGATCCCGCTGGATATg                                                                   >  3:174185/1‑149 (MQ=255)                                                                                         cGTCAGGGACGATATCTTTCGCTGCATGATGAAGTAAAAAACTTTCCGTTACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGGTGCTGTTTATGCTGTTATTCTGGATCCCGCTGGATATGCCGCTGAAATTCAc                                                     <  2:315699/149‑1 (MQ=255)                                                                                          gTCAGGGACGATATCTTTCGCTGCATGATGAAGTAAAAAACTTTCCGTTACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGGTGCTGTTTATGCTGTTATTCTGGATCCCGCTGGATATGCCGCTGAAATTCAct                                                    >  3:100364/1‑149 (MQ=255)                                                                                              gggACGATATCTTTCGCTGCATGATGAAGTAAAAAACTTTCCGTTACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGGTGCTGTTTATGCTGTTATTCTGGATCCCGCTGGATATGCCGCTGAAATTCActctct                                                <  1:475354/149‑1 (MQ=255)                                                                                                  cGATATCTTTCGCTGCATGATGAAGTAAAAAACTTTCCGTTACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGGTGCTGTTTATGCTGTTATTCTGGATCCCGCTGGATATGCCGCTGAAATTCACTCTCTCATg                                            <  3:406699/149‑1 (MQ=255)                                                                                                  cGATATCTTTCGCTGCATGATGAAGTAAAAAACTTTCCGTTACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGGTGCTGTTTATGCTGTTATTCTGGATCCCGCTGGATATGCCGCTGAAATTCACTCTCTCATg                                            >  1:297892/1‑149 (MQ=255)                                                                                                        cTTTCGCTGCATGATGAAGTAAAAAACTTTCCGTTACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGGTGCTGTTTATGCTGTTATTCTGGATCCCGCTGGATATGCCGCTGAAATTCACTCTCTCATGGATGaa                                      >  4:125533/1‑149 (MQ=255)                                                                                                         tttCGCTGCATGATGAAGTAAAAAACTTTCCGTTACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGGTGCTGTTTATGCTGTTATTCTGGATCCCGCTGGATATGCCGCTGAAATTCACTCTCTCATGGATGaaa                                     <  3:198277/149‑1 (MQ=255)                                                                                                         tttCGCTGCATGATGAAGTAAAAAACTTTCCGTTACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGGTGCTGTTTATGCTGTTATTCTGGATCCCGCTGGATATGCCGCTGAAATTCACTCTCTCATGGATGaaa                                     >  4:198277/1‑149 (MQ=255)                                                                                                                    gatgaAGTAAAAAACTTTCCGTTACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGGTGCTGTTTATGCTGTTATTCTGGATCCCGCTGGATATGCCGCTGAAATTCACTCTCTCATGGATGAAAGGCGCGCAGAc                          >  1:70836/1‑149 (MQ=255)                                                                                                                        aaGTAAAAAACTTTCCGTTACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGGTGCTGTTTATGCTGTTATTCTGGATCCCGCTGGATATGCCGCTGAAATTCACTCTCTCATGGATGAAAGgc                                  <  4:190193/137‑1 (MQ=255)                                                                                                                        aaGTAAAAAACTTTCCGTTACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGGTGCTGTTTATGCTGTTATTCTGGATCCCGCTGGATATGCCGCTGAAATTCACTCTCTCATGGATGAAAGgc                                  >  3:190193/1‑137 (MQ=255)                                                                                                                           tAAAAAACTTTCCGTTACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGGTGCTGTTTATGCTGTTATTCTGGATCCCGCTGGATATGCCGCTGAAATTCACTCTCTCATGGATGAAAGGCGCGCAGGCCATTGaa                   <  3:334562/149‑1 (MQ=255)                                                                                                                            aaaaaaCTTTCCGTTACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGGTGCTGTTTATGCTGTTATTCTGGATCCCGCTGGATATGCCGCTGAAATTCACTCTCTCATGGATGAAAGGCGCGCAGACCATTGAAg                  >  3:376421/1‑149 (MQ=255)                                                                                                                             aaaaaCTTTCCGTTACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGGTGCTGTTTATGCTGTTATTCTGGATCCCGCTGGATATGCCGCTGAAATTCACTCTCTCATGGATGAAAGGCGCGCAGACCATTGAAGc                 >  4:291976/1‑149 (MQ=255)                                                                                                                                     tCCGTTACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGGTGCTGTTTATGCTGTTATTCTGGATCCCGCTGGATATGCCGCTGAAATTCACTCTCTCATGGATGAAAGGCGCGCAGACCATTGAAGCCACCAGCg         <  3:338073/149‑1 (MQ=255)                                                                                                                                      ccGTTACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGGTGCTGTTTATGCTGTTATTCTGGATCCCGCTGGATATGCCGCTGAAATTCACTCTCTCATGGATGAAAGGCGCGCAGACCATTGAAGCCACCAGCGt        <  1:170424/149‑1 (MQ=255)                                                                                                                                         ttACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGgtgctgtaacggaaagttttttacttcatcatgcagcgaaagatatcgtccctgacgcactacatggcggtcgagatagatatcgatatcggtttgttgac     <  2:232617‑M2/149‑102 (MQ=255)                                                                                                                                         ttACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGGTGCTGTTTATGCTGTTATTCTGGATCCCGCTGGATATGCCGCTGAAATTCACTCTCTCATGGATGAAAGGCGCGCAGACCATTGAAGCCACCAGCGTaaa     >  2:376180/1‑149 (MQ=255)                                                                                                                                          tACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCTCTGCTGGTGCTGTTTATGCTGTTATTCTGGATCCCGCTGGATATGCCGCTGAAATTCACTCTCTCATGGATGAAAGGCGCGCAGACCATTGAAGCCACCATCGTaaaa    <  2:433989/149‑1 (MQ=255)                                                                                                                                            cAGCACcagcagcgagcccgcagcgataatcgtactgcgcagccagtgctgtaacggaaagttttttacttcatcatgcagcgaaagatatcgtccctgacgcactacatggcggtcgagatagatatcgatatcggtttgttgaccga  <  3:67685‑M1/149‑144 (MQ=255)                                                                                                                                            cAGCACcagcaacgagcccgcagcgataatcgtactgcgcagccagtgctgtaacggaaagttttttacttcatcatgcagcgaaagatatcgtccctgacgcactacatggcggtcgagatagatatcgatatcggtttgttgaccga  <  3:123959‑M1/149‑144 (MQ=255)                                                                                                                                               cACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGgtgctgtaacggaaagttttttacttcatcatgcagcgaaagatatcgtccctgacgcactacatggcggtcg                                 >  4:187209‑M2/1‑42 (MQ=255)                                                                                                                                               cACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGgtgctgtaacggaaagttttttacttcatcatgcagcgaaagatatcgtccctgacgcactacatggcggtcg                                 <  3:187209‑M2/115‑74 (MQ=255)                                                                                                                                                 |                                                                                                                                                GGTCTATCCCGCACACTGGCAGCCATACATTGCTCAGGATCTCGGTCAACAAACCGATATCGATATCTATCTCGACCGCCATGTAGTGCGTCAGGGACGATATCTTTCGCTGCATGATGAAGTAAAAAACTTTCCGTTACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGGTGCTGTTTATGCTGTTATTCTGGATCCCGCTGGATATGCCGCTGAAATTCACTCTCTCATGGATGAAAGGCGCGCAGACCATTGAAGCCACCAGCGTAAAACA  >  NC_000913/3527332‑3527619

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ 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.