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.

TTCATAACGATCTCCATATCTACCAGCGATACATTACGAGTAACCAACGAAAGACAAAACTGAAAAATGCCATTAACAAATGATTTTCAGAATAAATTCATACTAAATATTAATTAATTACTGAGATATATAGATGTGAATTATCCCCCACCCGGTCAGGCAGGGGATAACGTTTACGCCATTAATGGCAGAAGTTGCTGATAGAGGCGACGGAACGTTTCTCGTCGTGGCTGATAAGCGGCATAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACA  >  NC_000913_3_pae_pgi/3727744‑3728038                                                                                                                                                    |                                                                                                                                                    ttCATAACGATCTCCATATCTACCAGCGATACATTACGAGTAACCAACGAAAGACAAAACTGAAAAATGCCATTAACAAATGATTTTCAGAATAAATTCATACTAAATATTAATTAATTACTGAGATATATAGATGTGAATTATccccc                                                                                                                                                    <  2:168258/149‑1 (MQ=255)   cATAACGATCTCCATATCTACCAGCGATACATTACGAGTAACCAACGAAAGACAAAACTGAAAAATGCCATTAACAAATGATTTTCAGAATAAATTCATACTAAATATTAATTAATTACTGAGATATATAGATGTGAATTATCCCCCAc                                                                                                                                                  <  1:305222/149‑1 (MQ=255)    aTAACGATCTCCATATCTACCAGCGATACATTACGAGTAACCAACGAAAGACAAAACTGAAAAATGCCATTAACAAATGATTTTCAGAATAAATTCATACTAAATATTAATTAATTACTGAGATATATAGATGTGAATTATCCCCCAcc                                                                                                                                                 <  1:54441/149‑1 (MQ=255)    aTAACGATCTCCATATCTACCAGCGATACATTACGAGTAACCAACGAAAGACAAAACTGAAAAATGCCATTAACAAATGATTTTCAGAATAAATTCATACTAAATATTAATTAATTACTGAGATATATAGATGTGAATTATACCCCAcc                                                                                                                                                 >  2:823598/1‑149 (MQ=255)     tAACAATCGCCATATCTACCAGCGATACATTACGAGTAACCAACGAAAGACAAAACTGAAAAATGCCATTAACAAATGATTTTCAGAATAAATTCATACTAAATATTAATTAATTACTGAGATATATAGATGTGAATTATCCCCCAccc                                                                                                                                                >  2:132112/1‑149 (MQ=255)         gATCTCCATATCTACCAGCGATACATTACGAGTAACCAACGAAAGACAAAACTGAAAAATGCCATTAACAAATGATTTTCAGAATAAATTCATACTAAATATTAATTAATTACTGAGATATATAGATGTGAATTATCCCCCACCCGGTc                                                                                                                                            >  2:95952/1‑149 (MQ=255)          agctcCAAATCCACCAGCGATACATTACGAGTAACCAACGAAAGACAAAACTGAAAAATGCCATTAACAAATGATTTTCAGAATAAATTTATACGAAATATTAATTAATTACTGAGATATATAGATGTGAATTATCCCCCACCCGGTca                                                                                                                                           <  2:105291/147‑1 (MQ=255)           tctcCATATCTACCAGCGATACATTACGAGTAACCAACGAAAGACAAAACTGAAAAATGCCATTAACAAATGATTTTCAGAATAAATTCATACTAAATATTAATTAATTACTGAGATATATAGATGTGAATTATCCCCCACCCGGTcag                                                                                                                                          >  1:1002211/1‑149 (MQ=255)                        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                                                                                                               >  1:466953/1‑149 (MQ=255)                                      gAGTAACCAACGAAAGACAAAACTGAAAAATGCCATTAACAAATGATTTTCAGAATAAATTCATACTAAATATTAATTAATTACTGAGATATATAGATGTGAATTATCCCCCACCCGGTCAGGCAGGGGATAACGTTTACGCCATTAAt                                                                                                               <  2:856262/149‑1 (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                                                                                            <  1:200178/122‑1 (MQ=255)                                                                                    ttttCAGAATAAATTCATACTAAATATTAATTAATTACTGAGATATATAGATGTGAATTATCCCCCACCCGGTCAGGCAGGGGATAACGTTTACGCCATTAATGGCAGAAGTTGCTGATaga                                                                                            >  2:200178/1‑122 (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)                                                                                                                                                    |                                                                                                                                                    TTCATAACGATCTCCATATCTACCAGCGATACATTACGAGTAACCAACGAAAGACAAAACTGAAAAATGCCATTAACAAATGATTTTCAGAATAAATTCATACTAAATATTAATTAATTACTGAGATATATAGATGTGAATTATCCCCCACCCGGTCAGGCAGGGGATAACGTTTACGCCATTAATGGCAGAAGTTGCTGATAGAGGCGACGGAACGTTTCTCGTCGTGGCTGATAAGCGGCATAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACA  >  NC_000913_3_pae_pgi/3727744‑3728038

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.