New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	= 2777745	41 (0.650)	3 (0.050)	3/244	NT	6.9%	coding (495/705 nt)	USA300HOU_2631	transcriptional regulator
	?	CP000730	= 2777785	42 (0.710)					coding (455/705 nt)	USA300HOU_2631	transcriptional regulator

GAAATCCCAGCCATATCACTCATGAGTTGAATAGTTAAAAACTGTTTGATTTCATAAAATTCATCTTGATCGTATCCTACTGTCTGACATAGATGGCATATCAATTTGATAATTCGATCTTTAGCAAATTTACTTGTTAATGCCATGTTATAGTTCATGTGTTGCTGCTCATTATCATTTATTAATGCAAAAAGTGTCAAAAATATATCATCATTAGCTTTGCACAAAAAGGCCATCAATTCTCTAGGCAATCCAAGAACTGTACAATCGGTTAATGC  >  CP000730/2777647‑2777924                                                                                                                                           |                                                                                                                                            gAAATCCCAGCCATATCACTCATGAGTTGAATAGTTAAAAACTGTTTGATTTCATAAAATTCATCTTGATCGTATCCTACTGTCTGACATAGATGGCATATCAATTTGATAATTCGATCTTTAGCAAATTTACTTGTTAa                                                                                                                                            >  1:674707‑M2/1‑139 (MQ=255)    aTCCCAGCCATATCACTCATGAGTTGAATAGTTAAAAACTGTTTGATTTCATAAAATTAATTTTGGTCGTATCCTACTGTCTGACATAGATGGCATATCAATTTGATAATTCGATCTTTAGCAAATTTACTTGTTAttgc                                                                                                                                         <  2:605885‑M2/140‑5 (MQ=255)         aGCCATATCACTCATGAGTTGAATAGTTAAAAACTGTTTGATTTCATAAAATTCATCTTGATCGTATCCTACTGTCTGACATAGATGGCATATCAATTTGATAATTCGATCTTTAGCAAATTTACTTGTTAATGCCATGt                                                                                                                                    <  1:407979/140‑1 (MQ=255)         aGCCATATCACTCATGAGTTGAATAGTTAAAAACTGTTTGATTTCATAAAATTCATCTTGATCGTATCCTACTGTCTGACATAGATGGCATATCAATTTGATAATTCGATCTTTAGCAAATTTACTTGTTAATGCCATGt                                                                                                                                    <  1:575947/140‑1 (MQ=255)              tatCACTCATGAGTTGAATAGTTAAAAACTGTTTGATTTCATAAAATTCATCTTGATCGTATCCTACTGTCTGACATAGATGGCATATCAATTTGATAATTCGATCTTTAGCAAATTTACTTGTTAATGCCATGTTATAg                                                                                                                               <  1:515624/140‑1 (MQ=255)                tCACTCATGAGTTGAATAGTTAAAAACTGTTTGATTTCATAAAATTCATCTTGATCGTATCCTACTGTCTGACATAGATGGCATATCAATTTGATAATTCGATCTTTAGCAAATTTACTTTTTAatgccatctatgtcag                                                                                                                             <  1:596489‑M2/140‑17 (MQ=255)                      aTGAGTTGAATAGTTAAAAACTGTTTGATTTCATAAAATTCATCTTGATCGTATCCTACTGTCTGACATAGATGGCATATCAATTTTATAATTCTATCTTTAGCAAATTTACTTGTTAATGCCATGTTATAGTTCAtgtg                                                                                                                       <  2:51157/140‑1 (MQ=255)                       tGAGTTGAATAGTTAAAAACTGTTTGATTTCATAAAATTCATCTTGATCGTATCCCACTGTCTGACATCGACCGCATATCAATTGGATAATTCGATCTTTAGCAAATTTACTTGTTAATGCCATGTTATAGTTCATgtgt                                                                                                                      <  2:181126/140‑1 (MQ=255)                             gAATAGTTAAAAACTGTTTGATTTCATAAAATTCATCTTGATCGTATCCTACTGTCTGACATAGATGGCATATCAATTTGATAATTCGATCTTTAGCAAATTTACTTGTTAATGCCATGTTATAGTTCATGTGTtgctgc                                                                                                                <  1:553930/140‑1 (MQ=255)                             gAATAGTTAAAAACTGTTTGATTTCATAAAATTCATCTTGATCGTATCCTACTGTCTGACATAGATGGCATATCAATTTGATAATTCGATCTTTAGCAAATTTACTTGTTAATGCCATGTTATAGTTCATGTGTtgctgc                                                                                                                >  1:475879/1‑140 (MQ=255)                               atcgTTAAAAACTGTTTGATTTCATAAAATGCATCTTGATCGTATCCTACTGTCTGACATAGGTGGCATATCAATTTGATAATTCGATCTTTAGCAAATTTACTTGTTAATGCCATGTTATAGTTCATGTGTTGCTGCTc                                                                                                              >  2:425020/4‑140 (MQ=255)                               aTAGTTAAAAACTGTTTGATTTCATAAAATTCATCTTGATCGTATCCTACTGTCTGACATAGATGGCATATCAATTTGATAATTCGATCTTTAGCAAATTTACTTGTTAATGCCATGTTATAGTTCATGTGTTGCTGCTc                                                                                                              >  1:615579/1‑140 (MQ=255)                                 aGTTAAAAACTGTTTGATTTCATAAAATTCATCTTGATCGTATCCTACTGTCTGACATAGATGGCATATCAATTTGATAATTCGATCTTTAGCAAATTTACTTGTTAATGCCATGTTATAGTTCATGTGTTGCTGCTCAt                                                                                                            <  1:228567/140‑1 (MQ=255)                                    tAAAAACTGTTTGATTTCATAAAATTCATCTTGATCGTATCCTACTGTCTGACATAGATGGCATATCAATTTGATAATTCGATCTTTAGCAAATTTACTTGTTAATGCCATGTTATAGTTCATGTGTTGCTGCTCATTAt                                                                                                         >  2:386159/1‑140 (MQ=255)                                      aaaaCTGTTTGATTTCATAAAATTCTTCTTGATCGTATCCTACTGTCTGACATAGATTGCATATCAATTTGATAATTCGATCTTTAGCAAATTTACTTGTTAATGCCATGTTATAGTTCATGTGTTGCTGCTCATTATCa                                                                                                       <  2:141207/140‑1 (MQ=255)                                        aaCTGTTTGATTTCATAAAATTCATCTTGATCGTATTCTACTGTCTGACATAGATGGCATATCAATTTGATAATTCTATCTTTAGCAAATTTACTTGTTATTGCCATGTTATAGTTCATGTGTTGCTGCTCATTATCAtt                                                                                                     <  2:3773/140‑1 (MQ=255)                                              ttGATTTCATAAAATTCATCTTGATCGTATCCTTCTGTCTGACATAGATGGCATATCAATTTGATAATTCGATCTTTAGCAAATTTACTTGTTAATGCCATGTTATAGTTCATGTGTTGCTGCTCATTATCATTTATTaa                                                                                               <  1:243361/140‑1 (MQ=255)                                                      aTAAAATTCATCTTGATCGTATCCTACTGTCTGACATAGATGGCATATCAATTTGATAATTCGATCTTTAGCAAATTTACTTGTTAATGCCATGTTATAGTTCATGTGTTGCTGCTCATTATCATTTATTAATGCaaaaa                                                                                       <  2:560392/140‑1 (MQ=255)                                                       tAAAATTCATCTTGATCGTATCCTACTGTCTGACATAGATGGCATATCAATTTGATAATTCGATCTTTAGCAAATTTACTTGTTAATGCCATGTTATAGTTCATGTGTTGCTGCTCATTATCATTTATTAATGCAAAAAg                                                                                      <  1:288706/140‑1 (MQ=255)                                                       tAAAATTCATCTTGATCGTATCCTACTGTCTGACATAGATGGCATATCAATTTGATAATTCGATCTTTAGCAAATTTACTTGTTAATGCCATGTTATAGTTCATGTGTTGCTGCTCATTATCATTTATTAATGCAAAAAg                                                                                      <  1:409933/140‑1 (MQ=255)                                                       tAAAATTCATCTTGATCGTATCCTACTGTCTGACATAGATGGCATATCAATTTGATAATTCGATCTTTAGCAAATTTACTTGTTAATGCCATGTTATAGTTCATGTGTTGCTGCTCATTATCATTTATTAATGCAAAAAg                                                                                      <  1:224268/140‑1 (MQ=255)                                                         aaaTTCATCTTGATCGTATCCTACTGTCTGACATAGATGGCATCTCAATTTGATAATTCGATCTTTAGCAAATTTACTTGTTAATGCCATGTTATAGTTCATGTTTTGCTGCTAATTATCATTTATTAATGCAAAAAgtg                                                                                    >  1:209784/1‑140 (MQ=255)                                                         aaaTTCATCTTGATCGTATCCTACTGTCTGACATAGATGGCATATCAATGTGATAATTCGATCTTTAGCAAATTTACTTGTTAATGCCATGTTATAGTTCATGTGTTGCTGCTCATTATCATTTATTAATGCAAAAAgtt                                                                                    >  2:67901/1‑139 (MQ=255)                                                                    gcttgTATCCTACTGTCTTATATTGATGGCATATCAATTTGATAATTCGATCTTTAGCAAGTTTCCTTGTTAATGCCATGTTATAGTTCATTTGTTGCTGCTCATTATCATTTATTAATGCAAAAAGTGTCAAAAatata                                                                         <  1:581313/136‑1 (MQ=255)                                                                    gATCGTATCCTACTGTCTGACATAGATGGCATATCAATTTGATAATTCGATCTTTAGCAAATTTACTTGTTAATGCCATGTTATAGTTCATGTGTTGCTGCTCATTATCATTTATTAATGCAAAAAGTGTCAAAAatata                                                                         >  2:343573/1‑140 (MQ=255)                                                                         tATCCTACTGTCTGACATAGATGGCATATCAATTTGATAATTCGATCTTTAGCAAATTTACTTGTTAATGCCATGTTATAGTTCATGTGTTGCTGCTCATTATCATTTATTAATGCAAAAAGTGTCAAAAATATatcatc                                                                    <  1:214905/140‑1 (MQ=255)                                                                                    cTGACATAGATGGCATATCAATTTGATAATTCGATCTTTAGCAAATTTACTTTTTAatgccatctatgtcagacagtaggatacgatcaagatgaattttatgaaatcaaacagtttttaactattcaactcatgagtga                                                         >  2:596489‑M2/1‑56 (MQ=255)                                                                                     tGACATAGTTCGCATATCAATTTGATAATTCGATATCTACCAAAGTGACTTGTGCCTGGCATGGTATCGTTCATGTGTTGCTGCTAATTATACTTTATTAATGCAAAAACAGACAAACATGAATAATCATTAGCGTGGca                                                        >  2:49068/1‑140 (MQ=255)                                                                                     tGACATAGATGGCATATCAATTTGATAATTCGATCTTTAGCAAATTTACTTGTTAATGCCATGTTATAGTTCATGTGTTGCTGCTCATTATCATTTATCCATGAAAGAAGTGTCAAACATATATCATCATTATCTTTGcg                                                        >  1:676587/1‑139 (MQ=255)                                                                                        cATAGATGGCATATCAATTTGATAATTCGATCTTTAGCAAATTTACTTGTTAATGCCATGTTATAGTTCATGTGTTGCTGCTCATTATCATTTATTAATGCAAAAAGTGTCAAAAATATATCATCATTAGCTTTGCACaa                                                     >  1:126774/1‑140 (MQ=255)                                                                                        cATAGATGGCATATCAATTTGATAATTCGATCTCTAGAAAAGTGACTTGGTAATGCCATGTTATAGTTCATGTGTTGCTGCTCATTATCATTTATTAATGCAAAAAGTGTCAAAAATATATCATCATTAGCTTTGCACaa                                                     <  1:677308/140‑1 (MQ=255)                                                                                            gATGGCATATCAATTTGATAATTCGATCTTTAGCAAATTTACTTGTTAATGCCATGTTATAGTTCATGTGTTGCTGCTCATTATCATTTATTAATGCAAAAAGTGTCAAAAATATATCATCATTAGCTTTGCACAAAAAg                                                 >  1:355552/1‑140 (MQ=255)                                                                                               ggCATATCAATTTGATAATTCGATCTTTAGCAAATTTACTTGTTAATGCCATGTTATAGTTCATGTGTTGCTGCTCATTATCATTTATTAATGCAAAAAGTGTCAAAAATATATCATCATTAGCTTTGCACAAAAAGGcc                                              >  2:18866/1‑140 (MQ=255)                                                                                               ggCATATCAATTTGATAATTCGATCTTTAGCAAATTTACTTGTTAATGCCATGTTATAGTTCATGTGTTGCTGCTCATTATCATTTATTAATGCAAAAAGTGTCAAAAATATATCATCATTAGCTTTGCACAAAAAGGcc                                              >  2:379179/1‑140 (MQ=255)                                                                                                gCATATCAATTTGATAATTCGATCTTTAGCAAATTTACTTGTTAATGCCATGTTATAGTTCATGTGTTGCTGCTCATTATCATTTATTAATGCAAAAAGTGTCAAAAATATATCATCATTAGCTTTGCACAAAAAGGCCa                                             <  1:75937/140‑1 (MQ=255)                                                                                                gCATATCAATTTGATAATTCCATCTTTAGCAAATTTACTTGTTAATGCCATGTTATAGTTCATGTGTTGCTGCTCATTATCATTTATTAATGCAAAAAGTGTCAAAAATATATCATCATTAGCTTTGCACAAAAAGGCCa                                             <  2:71858/140‑1 (MQ=255)                                                                                                   tatCAATTTGATAATTCGATCTTTAGCAAATTTACTTGTTAatgccatctatgtcagacagtaggatacgatcaagatgaattttatgaaatcaaacagtttttaactattcaactcatgagtgatatggctgggatttc                                          <  1:665579‑M2/140‑100 (MQ=255)                                                                                                    atCAATTTGATAATTCGATCTTTAGCAAATTTACTTGTTAATGCCATGTTATAGTTCATGTGTTGCTGCTCATTATCATTTATTAATGCAAAAAGTGTCAAAAATATATCATCATTAGCTTTGCACAAAAAGGCCATCaa                                         <  2:475879/140‑1 (MQ=255)                                                                                                        aTTTGATAATTCGATCTTTAGCAAATTTACTTGTTAATGCCATGTTATAGTTCATGTGTTGCTGCTCATTATCATTTATTAATGCAAAAAGTGTCAAAAATATATCATCATTAGCTTTGCACAAAAAGGCCATCAATtct                                     <  1:322214/140‑1 (MQ=255)                                                                                                              tAATTCGATCTTTAGCAAATTTACTTGTTAATGCCATGTTATAGTTCATGTGTTGCTGCTCATTATCATTTATTAATGCAAAAAGTGTCAAAAATATATCATCATTAGCTTTGCACAAAAAGGCCATCAATTCTCTAGGc                               >  1:426651/1‑140 (MQ=255)                                                                                                                  tCGAACTTTAGCAAATTTACTTGTTAATGCCATGTTATAGTCCAGGTGTTGCTGCTCATTATCATTTATTAATGCAAAAAGTGTCAAAAATATATCATCATTAGCTTTGCACAAAAAGGCCATCAATTCTCTAGGCAATc                           <  1:393227/140‑1 (MQ=255)                                                                                                                     ttttttAGTAAATTTTCTTGTTAATGCCAGTTTATAGTTAATGTGTTTCCGCTCATTATCATTTATTAATGCAAACATTGTCAAAAATATATCATCATTAGCTTTGCACAAAAAGGCCCTCCATTCTTTAGGCAATCCaa                        <  2:642670/137‑1 (MQ=255)                                                                                                                       cTTTAGCAAATTTACTTGTTAATGCCATGTTATAGTTCATGTGTTGCTGCTCATTATCATTTATTAATGCAAAAAGTGTCAAAAATATATCATCATTAGCTTTGCACAAAAATGCCATCAATTCTCTAGGCAATCCAAGa                      >  1:702854/1‑140 (MQ=255)                                                                                                                          tAGCAAATTTACTTGTTAATGCCATGTTCTAGTTCATTTGTTGCTGCTCATTATCATTTATTAATGCAAAAAGTGTCAAAAATATATCATCATTAGCTTTGCACAAAAAGGCCATAAATTCTCTAGGCACTCCAGGAACt                   >  1:208047/1‑140 (MQ=255)                                                                                                                          tAGCAAATTTACTTGTTAATGCCATGTTATAGTTCATGTGTTGCTGCTCATTATCATTTATTAATGCAAAAAGTGTCAAAAATATATCATCATTAGCATTGCACAAAAAGGCCATCAATTCCCTAGGCAATCCAAGAAca                   >  1:45904/1‑139 (MQ=255)                                                                                                                                  ttACTTGTTAATGCCATGTTATAGTTTATGTGTTGCTGCTCATTATCATTTATTAATGCAAAAAGTGTCAAAAATATATCATCATTAGCTTTGCACAAAAAGGCCATCAATTCTCTAGGCAATCCAAGAACTGTACAATc           <  1:296160/140‑1 (MQ=255)                                                                                                                                   tACTAGTTAATGCCATGTTATAGTTCATGTGTCGCTGCTCATTATCATTTATTAATGCAAAAAGTGTCAAAAATATATCATCATTAGCTTTGCACAAAAAGGCCATCAATTCTCTAGGCAATCCAACAACTGTACAATCg          >  1:520272/1‑140 (MQ=255)                                                                                                                                      ttGTTAATGCCATGTTATAGTTCATGTTGTGCTGGTCATTATCATTTATTAATGCAAAAAGTGTCAAAAATATATCATCATTAGCTTTGCACAAAAAGGCCATCAATTCTCTAGGCAATCCAAGAACTGTACAATCGGtt       <  2:308152/140‑1 (MQ=255)                                                                                                                                      ttGTTAATGCCATGTTATAGTTCATGTGTTGCTGCTCATTATCATTTATTAATGCAAAAAGTGTCAAAAATATATCATCATTAGCTTTGCACAAAAAGGCCATCAATTCTCTAGGCAATCCAAGAACTGTACAATCGGtt       <  1:78285/140‑1 (MQ=255)                                                                                                                                           aaTGCTATTGTATAGTTCATGTGTTGCTGCGCTTTATCCTATATTAATGCAAAAAGTGTGAAAAATATATCATCATTAGCTTTGCACACAAAGGTCATCAATTCTCTAGGCAATCCAAGAACTGTACAATCGGTTAATGc  <  2:236338/140‑1 (MQ=255)                                                                                                                                           |                                                                                                                                            GAAATCCCAGCCATATCACTCATGAGTTGAATAGTTAAAAACTGTTTGATTTCATAAAATTCATCTTGATCGTATCCTACTGTCTGACATAGATGGCATATCAATTTGATAATTCGATCTTTAGCAAATTTACTTGTTAATGCCATGTTATAGTTCATGTGTTGCTGCTCATTATCATTTATTAATGCAAAAAGTGTCAAAAATATATCATCATTAGCTTTGCACAAAAAGGCCATCAATTCTCTAGGCAATCCAAGAACTGTACAATCGGTTAATGC  >  CP000730/2777647‑2777924

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ 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.