New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	= 1483730	16 (0.410)	11 (0.280)	10/276	NT	40.7%	coding (670/3903 nt)	hrpA	putative ATP‑dependent helicase
	?	NC_000913_3_pae_tpiA	= 2290113	NA (NA)					intergenic (‑32/+1)	insH1/yejO	IS5 transposase and trans‑activator/pseudogene, autotransporter outer membrane homology;putative transport; Not classified; putative ATP‑binding component of a transport system

CGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAAATACCCATAGCTCCATACCCGGAGTC  >  NC_000913_3_pae_tpiA/2289966‑2290258                                                                                                                                                    |                                                                                                                                                  cGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCa                                                                                                                                                  <  1:451221/149‑1 (MQ=11)    gACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATaa                                                                                                                                               <  1:606548/149‑1 (MQ=32)               ctctTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGACGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATAGCAGGGAATTGTTCGCACCTTCCATACAGCTGTAGcaa                                                                                                                                    >  1:118831/1‑147 (MQ=11)                  ttttCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGccacca                                                                                                                                 >  1:525881/1‑149 (MQ=255)                  ttttCTGGTCTGACGGCGCGTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATCACACACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACCCTGTAGccacca                                                                                                                                 >  2:553639/1‑149 (MQ=255)                  tttgCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGGAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATTACAAACATGATCTCATATCGGGGACTTGTTCGCACCTTCCATAACGCTGTAGccacca                                                                                                                                 <  2:645491/149‑1 (MQ=255)                       gggTCGGACGGCGTTTACTGCGGAATTCAGTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACa                                                                                                                            <  2:60057/148‑1 (MQ=255)                                   tgttAGTGCTGAATTCGCTGTCGGCGAAGGTAAGTGGAAGACTCATGATGAACCCTGTTCTATGGCGCCAGATGACAAACATGATCTCATTTCAGGGACTTGTTCGAACCTTCCATCACGCTGTAGCCACCAGAACAGATATTGCGGaa                                                                                                                <  2:309873/147‑1 (MQ=17)                                     ttACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACg                                                                                                              >  1:406409/1‑149 (MQ=255)                                          gctgAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCCCCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACaaa                                                                                                         <  2:647341/149‑1 (MQ=255)                                          gcagAATCCACTTTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACaaa                                                                                                         <  1:684515/146‑1 (MQ=255)                                           ctgAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGCACAGATATTGCGGAACGACAAag                                                                                                        >  1:357308/1‑149 (MQ=255)                                              aaTTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAgaga                                                                                                     >  1:212232/1‑149 (MQ=255)                                                     tgcgggCGAAGGTAATTGTATGCACCATGATTAACCTTGTTCTATGGCTCCGGATGACAAACATGATCTCATATCAGGGACGTGTTCGCACCTGCCATAACGCCGTAGCGACCAGAAGAGATATTGCGGAACGACAAAGAGAAACAGaa                                                                                              <  2:86727/145‑1 (MQ=18)                                                          gCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGa                                                                                         <  2:659583/149‑1 (MQ=255)                                                               ggTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAGGAGAAACAGAACCAGATTGAt                                                                                    >  1:702152/1‑149 (MQ=255)                                                               ggTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGAt                                                                                    <  1:573230/149‑1 (MQ=255)                                                               ggTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGAt                                                                                    <  2:143834/149‑1 (MQ=255)                                                                gTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACACAGAGAAACAGAACCAGATTGATg                                                                                   >  2:441770/1‑149 (MQ=255)                                                                       ggtgaCGCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAg                                                                            <  2:435254/147‑1 (MQ=255)                                                                        atgaCTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATGTCAGGGACTTGTTCGCAACTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACACAGAGAAACGTAACAAGATTGCTGCATTGAGc                                                                           >  2:32241/1‑149 (MQ=25)                                                                           aCTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGCACCAGATTGATGCCTTGAGCttt                                                                        >  2:657633/1‑149 (MQ=255)                                                                             ctatgatgAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCa                                                                      <  1:333004/147‑1 (MQ=255)                                                                                 gatgaACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCt                                                                  >  1:329301/1‑149 (MQ=255)                                                                                 gatgaACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCt                                                                  >  1:676049/1‑149 (MQ=255)                                                                                   tgaACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCCTATAAGGGACTGGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTAt                                                                >  1:657346/1‑149 (MQ=255)                                                                                     aaCCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGa                                                              >  1:727238/1‑149 (MQ=255)                                                                                        ccTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAaat                                                           >  1:451866/1‑149 (MQ=255)                                                                                             tCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAaattaatt                                                      <  1:278700/149‑1 (MQ=255)                                                                                             tCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAaattaatt                                                      <  1:359775/149‑1 (MQ=255)                                                                                                    cTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAAAAGAACCAGATTGATGAATTGAGCTTTCATACTATGAAATTAATTGCTGTTa                                               >  2:519120/1‑149 (MQ=255)                                                                                                         gATGACAAACATTATCTCATATCAGGCACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAATAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGc                                          <  2:688836/149‑1 (MQ=255)                                                                                                            gACAAACATGATGTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCATAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCAtt                                       <  1:727441/149‑1 (MQ=255)                                                                                                             aCAAACGGGAACTCATACCAGGGAACTGTTAGCATCTTCCATAACGCTGTAGCCACCAGATCAGATATTGTGGAACGACAAAGAGAAACAGAACCAGATGTATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTg                                      <  2:694289/149‑1 (MQ=255)                                                                                                               aaaCATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTACTGTTACAAGCATTggg                                    >  2:63221/1‑149 (MQ=255)                                                                                                                 aCATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGCGTa                                  >  1:457940/1‑149 (MQ=255)                                                                                                                      aTCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTTCGGAACGAGAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTAATCCTATGAAATTAATTGATGTTAAAAGCATTGGGTACAGaa                             >  1:34588/1‑149 (MQ=255)                                                                                                                           atatCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTTTGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAAATAc                        >  1:218907/1‑149 (MQ=255)                                                                                                                                aGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAAATACCCATa                   >  1:436631/1‑149 (MQ=255)                                                                                                                                    gctgggtCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAAATACCCATAGCTc               <  1:105999/143‑1 (MQ=255)                                                                                                                                      atggtCGCACCGTCCATAACGCTGGAGCCACCAGAACAGATATTGCGGAACGACGAAGAGAAACAGAACGAGATTGATGCATTCAGCTTCAATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAAATACCCATAGCTccg             <  2:555578/145‑2 (MQ=255)                                                                                                                                           cGCACCTTCTATAACGCTGTAGCCACCAGAACAGTTATTGCGGAACGACAAAGAAAAACAGAACCAGATTGATGCATTGAGCTTTCATACTATGAAATTAATTGCTGTTAAAATCATTGGGTACAGAAAATACTCATACCTACATAccc        >  2:455458/1‑149 (MQ=255)                                                                                                                                              aCCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAAATACCCATAGCTCCATACCCGGa     <  1:37149/149‑1 (MQ=255)                                                                                                                                              aCCTCCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAAATACCCATAGCTCCATACCCGGa     <  1:233352/149‑1 (MQ=255)                                                                                                                                                cTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAAATACCCATAGCTCCATACCCGGAGt   >  1:375809/1‑149 (MQ=255)                                                                                                                                                 ttCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAAATACCCATAGCTCCATACCCGGAGTc  >  1:480620/1‑149 (MQ=255)                                                                                                                                                    |                                                                                                                                                  CGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAAATACCCATAGCTCCATACCCGGAGTC  >  NC_000913_3_pae_tpiA/2289966‑2290258

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.