New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_pgi	= 3727891	53 (0.890)	4 (0.070)	4/262	7.8	7.4%	intergenic (‑143/+26)	yiaB/xylB	YiaAB family inner membrane protein/xylulokinase
	?	NC_000913_3_pae_pgi	= 3727905	50 (0.890)					intergenic (‑157/+12)	yiaB/xylB	YiaAB family inner membrane protein/xylulokinase
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

CAGCGATACATTACGAGTAACCAACGAAAGACAAAACTGAAAAATGCCATTAACAAATGATTTTCAGAATAAATTCATACTAAATATTAATTAATTACTGAGATATATAGATGTGAATTATCCCCCACCCGGTCAGGCAGGGGATAACGTTTACGCCATTAATGGCAGAAGTTGCTGATAGAGGCGACGGAACGTTTCTCGTCGTGGCTGATAAGCGGCATAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGA  >  NC_000913_3_pae_pgi/3727767‑3728047                                                                                                                                           |                                                                                                                                               cAGCGATACATTACGAGTAACCAACGAAAGACAAAACTGAAAAATGCCATTAACAAATGATTTTCAGAATAAATTCATACTAAATATTAATTAATTACTGAGATATATAGATGTGAATTATCCCCCACCCGGTCAGGCAGGGGATAACg                                                                                                                                      >  1:908550/1‑149 (MQ=255)         cATTACGAGTAACCAACGAAAGCCAAAACTGAAAAATGCCATTAACAAATGATTTTCAGAATAAATTCATACTAAATATTAATTAATTACTGAGATATATAGATGTGAATTATCCCCCACCCGGTCAGGCAGGGGATAACGTTTACGcc                                                                                                                              >  2:56626/1‑149 (MQ=255)           ttACGAGTAACCAACGAAAGACAAAACTGAAAAATGCCATTAACAAATGATTTTCAGAATAAATTCATACTAAATATTAATTAATTACTGAGATATATAGATGTGAATTATCCCCCACCCGGTCAGGCAGGGGATAACGTTTACGCCAt                                                                                                                            >  2:639303/1‑149 (MQ=255)           ttACGAGTAACCAACGAAAGACAAAACTG‑AAAATGCCATTAACAAATGATTTTCAGAATAAATTCATACTAAATATTAATTAATTACTGAGATATATAGATGTGAATTATCCCCCACCCGGTCAGGCAGGGGATAACGTTTACGCCAtt                                                                                                                           >  1:397553/1‑149 (MQ=255)               gAGTAACCAACGAAAGACAAAACTGAAAAATGCCATTAACAAATGATTTTCAGAATAAATTCATACTAAATATTAATTAATTACTGATATATATAGATTTGAATTATCCCCCACCCGGTCAGGCAGGGGATAACGTTTACGCCATTAAt                                                                                                                        <  2:479356/149‑1 (MQ=255)               gAGTAACCAACGAAAGACAAAACTGAAAAATGCCATTAACAAATGATTTTCAGAATAAATTCATACTAAATATTAATTAATTACTGAGATATATAGATGTGAATTATCCCCCACCCGGTCAGGCAGGGGATAACGTTTACGCCAtc                                                                                                                           <  1:300924/146‑2 (MQ=255)               gAGTAACCAACGAAAGACAAAACTGAAAAATGCCATTAACAAATGATTTTCAGAATAAATTCATACTAAATATTAATTAATTACTGAGATATATAGATGTGAATTATCCCCCACCCGGTCAGGCAGGGGATAACGTTTACGCCAtc                                                                                                                           >  2:300924/1‑145 (MQ=255)               gAGTAACCAACGAAAGACAAAACTGAAAAATGCCATTAACAAATGATTTTCAGAATAAATTCATACTAAATATTAATTAATTACTGAGATATATAGATGTGAATTATCCCCCACCCGGTCAGGCAGGGGATAACGTTTACGCCATTAAt                                                                                                                        <  2:856262/149‑1 (MQ=255)               gAGTAACCAACGAAAGACAAAACTGAAAAATGCCATTAACAAATGATTTTCAGAATAAATTCATACTAAATATTAATTAATTACTGAGATATATAGATGTGAATTATCCCCCACCCGGTCAGGCAGGGGATAACGTTTACGCCATTAAt                                                                                                                        >  1:466953/1‑149 (MQ=255)                aGTAACCAACGAAAGACAAAACTGAAAAATGCCATTAACAAATGATTTTCAGAATAAATTCATACTAAATATTAATTAATTACTGAGATATATAGATGTGAATTATCCCCCACCCGGTCAGGCAGGGGATAACGTTTACGCCATTAATg                                                                                                                       <  2:814129/149‑1 (MQ=255)                 gTAACCAACGAAAGACAAAACTGAAAAATGCCATTAACAAATGATTTTCAGAATAAATTCATACTAAATATTAATTAATTACTGAGATATATAGATGTGAATTATCCCCCACCCGGTCAGGCAGGGGATAACGTTTACGCCATTAATgg                                                                                                                      <  1:502612/149‑1 (MQ=255)                    aCCAACGAAAGACAAAACTGAAAAATGCCATTAACAAATGATTTTCAGAATAAATTCATACTAAATATTAATTAATTACTGAGATATATAGATGTGAATTATCCCCCACCCGGTCAGGCAGGGGATAACGTTTACGCCATTAATGGCAg                                                                                                                   >  2:377450/1‑149 (MQ=255)                      cAACGAAAGACAAAACTGAAAAATGCCATTAACAAATGATTTTCAGAATAAATTCATACTAAATATTAATTAATTACTGAGATATATAGATGTGAATTATCCCCCACCCGGTCAGGCAGGGGATAACGTTTACGCCATTAATGGCAgta                                                                                                                 >  1:236995/1‑147 (MQ=255)                           aaaGACAAAACTGAAAAATGCCATTAACAAATGATTTTCAGAATAAATTCATACTAAATATTAATTAATTACTGAGATATATAGATGTGAATTATCCCCCACCCGGTCAGGCAGGGGATAACGTTTACGCCATTAATGGCAGAAGTTGc                                                                                                            <  2:466953/149‑1 (MQ=255)                           aaaGAAAAAACTGAAAAATGCCATCAACAAATGATTTTCAGAATAAATTCATACTCATTTTAAATCAATTACTGAGATATATAGATGTGAATTATCCCCCACCCGGTCAGGCAGGGGATAACGTTTACGCCATTAATGGCAGAAGTTGc                                                                                                            <  1:1031529/149‑1 (MQ=255)                                  aaaCTGAAAAATGCCATTAACAAATGATTTTCAGAATAAATTCATACTAAATATTAATTAATTACTGAGATATATAGATGTGAATTATCCCCCACCCGGTCAGGCAGGGGATAACGTTTACGCCATTAATGGCAGAAGTTGCTGATaga                                                                                                     <  1:95952/149‑1 (MQ=255)                                        aaaaaCGCCATTAACAAATGATTTTCAGAATAAATTCATACTAAATATTAATTAATTACTGAGATATATAGATGTGAATTATCCCCCACCCGGTCAGGCAGGGGATAACGTTTACGCCATTAATGGCAGAAGTTGCTGATAGAGGCGAc                                                                                               >  2:94012/1‑149 (MQ=255)                                                cATTAACAAATGATTTTCAGAATAAATTCATACTAAATATTAATTAATTACTGAGATATATAGATGTGAATTATCCCCCACCCGGTCAGGCAGGGGATAACGTTTACGCCATTAATGGCAGAAGTTACTGTTAGGGGAGAGTGAACGtt                                                                                       >  2:606954/1‑149 (MQ=255)                                                 aTTAACAAATGATTTTCAGAATAAATTCATACTAAATATTAATTAATTACTGAGATATATAGATGTGAATTATCCCCCACCCGGTCAGGCAGGGGATAACGTTTACGCCATTAATGGCAGAAGTTGCTGATAGAGGCGACGGAACGttt                                                                                      <  2:397553/149‑1 (MQ=255)                                                 aTTAACAAATGATTTTCAGAATAAATTCATACTAAATATTAATATATTACTGAGATATAAAGATGTAAATTATACACCACCCGGTCGGGAAGGGGATAACGTTTACGCCATTAATGGCAGAAGATGCTGATCGAGGCGACGGACCGttt                                                                                      >  1:63490/1‑149 (MQ=255)                                                    aaCAAATGATTTTCAGAATAAATTCATACTAAATATTAATTAATTACTGAGATATATAGATGTGAATTATCCCCCACCCGGTCAGGCAGGGGATAACGTTTACGCCATTAATGGCAGAAGTTGCTGATAGAGGCGACGGAACGTTtctc                                                                                   <  1:94012/149‑1 (MQ=255)                                                        aaTGATTTTCAGAATAAATTCATACTAAATATTAATTAATTACTGAGATATATAGATGTGAATTATCCCCCACCCGGTCAGGCAGGGGATAACGTTTACGCCATTAATGGCAGAAGTTGCTGATAGAGGCGACGGAACGTTTCtcgtcg                                                                               >  1:175265/1‑149 (MQ=255)                                                             ttttCAGAATAAATTCATACTAAATATTAATTAATTACTGAGATATATAGATGTGAATTATCCCCCACCCGGTCAGGCAGGGGATAACGTTTACGCCATTAATGGCAGAAGTTGCTGATaga                                                                                                     >  2:200178/1‑122 (MQ=255)                                                             ttttCAGAATAAATTCATACTAAATATTAATTAATTACTGAGATATATAGATGTGAATTATCCCCCACCCGGTCAGGCAGGGGATAACGTTTACGCCATTAATGGCAGAAGTTGCTGATaga                                                                                                     <  1:200178/122‑1 (MQ=255)                                                                    aaTAAATTCATACTAAATATTAATTAATTACTGAGATATATAGATGTGAATTATCCCCCACCCGGTCAGGCAGGGGATAACGTTTACGCCATTAATGGCAGAAGTTGCTGATAGAGGCGACGGAACGTTTCTCGTCGTGGCTGATAAGc                                                                   >  2:582551/1‑149 (MQ=255)                                                                      tacaTTCATACTAAATATTAATTAATTACTGAGATATATAGATGTGAATTATCCCCCACCCGGTCAGGCAGGGGATAACGTTTACGCCATTAATGGCAGAAGTTGCTGATAGAGGCGACGGAACGTTTCTCGTCGTGGCTGATAAGCgg                                                                 <  2:1002211/146‑1 (MQ=255)                                                                       aaaTTCAAACTAAAGAATAATTAATTACTGAGATATATAGATGTGAATTATCCCCCACCCGGTCAGGCAGGGGATAACGTTTACGCCATTAATGGCAGAAGTTGCTGATAGAGGCGACGGAACGTTTCTCGTCGTGGCTGATAAGCGGc                                                                <  2:701686/149‑1 (MQ=255)                                                                                cTAAATATTAATTAATTACTGAGATATATAGATGTGAATTATCCCCCACCCGGTCAGGCAggg                                                                                                                                             >  1:614639/1‑63 (MQ=255)                                                                                cTAAATATTAATTAATTACTGAGATATATAGATGTGAATTATCCCCCACCCGGTCAGGCAggg                                                                                                                                             <  2:614639/63‑1 (MQ=255)                                                                                              attaCTTAGCTATATAGATGTGAATTATCCCCCACCTGGTCAGGCAGGGGATAACGTTTACGCCATTAATGGCAGAAGTTGCTGATAGAGGCGACGGAACGTTTCTCGTCGTGGCTGATAAGCGGCATAACGCTGCGCATCTGGTAGAt                                         <  1:417299/149‑1 (MQ=255)                                                                                              attaCTGAGATATATAGATTTGAATTATCCCCCACCCGGTCAGGCAGGGGATAACGTTTACGCCATTAATGGCAGAAGTTGCTGATAGAGGCGACGGAACGTTTCTCGTCGTGGCTGATAAGCGGCATAACGCTGCGCATCTGGTAGAt                                         <  1:200417/149‑1 (MQ=255)                                                                                                taCTGAGATATATAGATGTGAATTATCCCCCACCCGGTCAGGCAGGGGATAACGTTTACGCCATTAATGGCAGAAGTTGCTGATAGAGGCGACGGAACGTTTCTCGTCGTGGCTGATAAGCGGCATAACGCTGCGCATCTGGTAGATGc                                       <  1:886543/149‑1 (MQ=255)                                                                                                  cTGAGATATATAGATGTGAATTATCCCCCACCCGGTCAGGCAGGGGATAACGTTTACGCCATTAATGGCAGAAGTTGCTGATAGAGGCGACGGAACGTTTCTCGTCGTGGCTGATAAGCGGCATAACGCTGCGCATCTGGTAGATGCGa                                     <  1:582551/149‑1 (MQ=255)                                                                                                       atatatAGATGTGAATTATCCCCCACCCGGTCAGGCAGGGGATAACGTGTGCCGCATTAATGGCAGAAGTTGCAGATAGAGGCGACGGAACGTTTCTCGGCGTGGCTGATAAGCGGCATAACGCTGCGCATCTGGTAGATGCGACTGtt                                <  2:936/149‑1 (MQ=255)                                                                                                           ataGATGTGAATTATCCCCCACCCGGTCAGGCAGGGGATAACGTTTACGCCATTAATGGCAGAAGTTGCTGATAGAGGCGACGGAACGTTTCTCGTCGTGGCTGATAAGCGGCATAACGCTGCGCATCTGGTCGATGCGCCTGTTCTaa                            >  2:697368/1‑149 (MQ=255)                                                                                                            taGATGTGAATTATCCCCCACCCGGTCAGGCAGGGGATAACGTTTAGGCCATTAATGGCAGAAGTTGCTGATAGAGGCGACGGAACGTTTCTCGTCGTGGCTGATAAGCGGCATAACGCTGCGCATCTGGTAGATGCGACTGTTCTAAc                           <  1:132112/149‑1 (MQ=255)                                                                                                               aTGTGAATTATCCCCCACCCGGTCAGGCAGGGGATAACGTTTACGCCATTAATGGCAGAAGTTGCTGATAGAGGCGACGGAACGTTTCTCGTCGTGGCTGAt                                                                       >  2:764199/1‑102 (MQ=255)                                                                                                               aTGTGAATTATCCCCCACCCGGTCAGGCAGGGGATAACGTTTACGCCATTAATGGCAGAAGTTGCTGATAGAGGCGACGGAACGTTTCTCGTCGTGGCTGAt                                                                       <  1:764199/102‑1 (MQ=255)                                                                                                               aTGTGAATTATCCCCCACCCGGTCAGGCAGGGGATAACGTTTACGCCATTAATGGCAGAAGTTGCTGATAGAGGCGACGGAACGTTTCTCGTCGTGGCTGATAAGCGGCATAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGt                        >  1:349034/1‑149 (MQ=255)                                                                                                                    aaTTATCCCCCACCCGGTCAGGCAGGGGATAACGTTTACGCCATTAATGGCAGAAGTTGCTGATAGAGGCGACGGAACGTTTCTCGTCGTGGCTGATAAGCGGCATAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTg                   >  2:671383/1‑149 (MQ=255)                                                                                                                     aTTATCCCCCACCCGGTCAGGCAGGGGATAACGTTTACGCCATTAATGGCAGAAGTTGCTGATAGAGGCGACGGAACGTTTCTCGTCGTGGCTGATAAGCGGCATAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGc                  <  2:175265/149‑1 (MQ=255)                                                                                                                       tagcccccACCCGGTCAGGCAGGGGATAACGTTTACGCCATTAATGGCAGAAGTTGCTGATAGAGGCGACGGAACGTTTCTCGTCGTGGCTGATAAGCGGCATAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCgg                <  1:938594/146‑1 (MQ=255)                                                                                                                       gaTCCCCCACCCGGTCAGGCAGGGGATAACGTTTACGCCATTAATGGCAGAAGTTGCTGATAGAGGCGACGGAACGTTTCTCGTCTTGGCTGATAAGCGGCATAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCgg                <  2:701222/148‑1 (MQ=255)                                                                                                                          cccccACCCGGTCAGGCAGGGGATAACGTTTACGCCATTAATGGCAGAAGTTGCTGATAGAGGCGACGGAACGTTTCTCGTCGTGGCTGATAAGCGGCATAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGcaa             >  1:24234/1‑149 (MQ=255)                                                                                                                            cccACCCGGTCAGGCAGGGGATAACGTTTACGCCATTAATGGCAGAAGTTGCTGATAGAGGCGACGGCACGTTTCTCGTCGTGGCTGATACGCGGCATCACGCTACGCATCTGGTAAATGCTCCTCTTATAATGGTAATTACGGcaaca           >  1:304757/1‑149 (MQ=255)                                                                                                                              cACCCGGTCAGGCAGGGGATAACGTTTACGCCATTAATGGCAGAAGTTGCTGATAGAGGCGACGGAACGTTTCTCGTCGTGGCTGATAAGCGGCATAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAAt         <  1:377450/149‑1 (MQ=255)                                                                                                                               aCCCGGTCAGGCAGGGGATAACGTTTACGCCATTAATGGCAGAAGTTGCTGATAGAGGCGACGGAACGTTTCTCGTCGTGGCTGATAAGCGGCATAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAAtt        <  1:392737/149‑1 (MQ=255)                                                                                                                                 ccGGTCAGGCAGGGGATAACGTTTACGCCATTAATGGCAGAAGTTGCTGATAGAGGCGACGGAACGTTTCTCGTCGTGGCTGATAAGCGGCATAACGCTTCGCATCTGATAGATACGCCTGTTCTAACTGTAGTTTCGGCAACAATTCa      >  2:372282/1‑149 (MQ=255)                                                                                                                                   ggTCAGGCAGGGGATAACGTTTACGCCATTAATGGCAGAAGTTGCTGATAGAGGCGACGGAACGTTTCTCGTCGTGGCTGATAAGCGGCATAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAAt    <  1:305183/149‑1 (MQ=255)                                                                                                                                     tCAGGCAGGGGATAACGTTTACGCCATTAATGGCAGAAGTTGCTGATAGAGGCGACGGAACGTTTCTCGTCGTGGCTGATAAGCGGCATAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAGCAATTCAATGa  <  1:653174/149‑1 (MQ=255)                                                                                                                                     tCAGGCAGGGGATAACGTTTACGCCATTAATGGCAGAAGTTGCTGATAGAGGCGACGGAACGTTTCTCGTCGTGGCTGATAAGCGGCATAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGa  <  1:653336/149‑1 (MQ=255)                                                                                                                                     tCAGGCAGGGGATAACGTTTACGCCATTAATGGCAGAAGTTGCTGATAGAGGCAACGGAACGTTTCGCGTCGTGGCTGATAAGCGGCATAACGCTGCGCATCTGGGAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGa  >  2:649639/1‑149 (MQ=255)                                                                                                                                           |                                                                                                                                               CAGCGATACATTACGAGTAACCAACGAAAGACAAAACTGAAAAATGCCATTAACAAATGATTTTCAGAATAAATTCATACTAAATATTAATTAATTACTGAGATATATAGATGTGAATTATCCCCCACCCGGTCAGGCAGGGGATAACGTTTACGCCATTAATGGCAGAAGTTGCTGATAGAGGCGACGGAACGTTTCTCGTCGTGGCTGATAAGCGGCATAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGA  >  NC_000913_3_pae_pgi/3727767‑3728047

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ 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.