New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	2347190 =	NA (NA)	5 (0.120)	5/268	5.4	NA	noncoding (31/203 nt)	REP164 (repetitive extragenic palindromic) element; contains 5 REP sequences	REP164 (repetitive extragenic palindromic) element; contains 5 REP sequences
	?	NC_000913_3_pae_tpiA	= 2835148	NA (NA)					noncoding (82/82 nt)	REP195 (repetitive extragenic palindromic) element; contains 2 REP sequences	REP195 (repetitive extragenic palindromic) element; contains 2 REP sequences
Rejected: Coverage evenness skew score above cutoff.

CGGATGAAAGAGGCATTTGGATTGTTGAAAACATTGCCGATGTAGGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGACGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGTGTCCAAATGCAACACGTTTTATCCGTTCTGGACTTCACCCGCTAACCAACGCGCCGCAGCAATAACCCCCTGCCCCAGAGACAAACCGCCATCACCCGCCGGTAAACTCTGTGGAAAGAGCAATGTGAAATCAGCGAGA  >  NC_000913_3_pae_tpiA/2835001‑2835293                                                                                                                                                    |                                                                                                                                                  cGGATGAAAGAGGCATTTGGATTGTTGAAAACATTGCCGATGTAGGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGACGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCa                                                                                                                                                  >  1:398275/1‑149 (MQ=255)    aTGAAAGAGGCATTTGGATTGTTGAAAACATTGCCGATGTAGGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGACGCATGTGTAGGCCGGATAAGGGGTTTCCGCCGCATCCGGCCATg                                                                                                                                               >  2:229604/1‑149 (MQ=255)         atatgCATTTGGATTGTTCAAAACATTGCCGATGTAGGTTGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGCGACGCATGACTACGCCGCATAAGCCCTTTACGCCGCTTCCACCAAAGTTGTc                                                                                                                                          <  2:638525/145‑1 (MQ=25)                tttGGATTGTTGAAAACATTGCCGATGTAGGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGACGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGTGTCCAAATGc                                                                                                                                   >  1:457741/1‑149 (MQ=255)                      tttgtgAAAACATTGCCGATGTAGGTGGGCTACTGGGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGACGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGTGTCCAAATGCAACACg                                                                                                                             <  1:562250/145‑1 (MQ=255)                            aaaaCATTGCCGATGTAGGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGACGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGTGTCCAAATGCAACACGTTTTAt                                                                                                                       >  1:367227/1‑149 (MQ=255)                             aaaCATTGCCGATGTAGGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGACGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGTGTCCAAATGCAACACGTTTTATc                                                                                                                      >  1:682705/1‑149 (MQ=255)                                    ggcGATGTAGGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGGGCGTCTCAGCCGACCTACGGGGAGGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGTGTCCAAATGCTACACGTTTTATCCGTTCTg                                                                                                               <  2:90435/147‑1 (MQ=25)                                            aGGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGACGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGTGTCCAAATGCAACACGTTTTATCCGTTCTGGACTTCAc                                                                                                       >  1:666932/1‑149 (MQ=255)                                             ggTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGACGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGTGTCCAAATGCAACACGTTTTATCCGTTCTGGACTTCAcc                                                                                                      <  2:25911/149‑1 (MQ=255)                                               tGGGCTACTGTGCATAAGATGACGGACGCGACGCTGGCGCGTCTTATCCGTCCTACGGGTACGCATGTGAAGGCAGGATCAGGAGTTTACGCCGCATCCGGCAATGGTGTCCAAATGCAACACGTTTTGTCCGTTCTGGACTTCACCCg                                                                                                    >  1:638101/1‑149 (MQ=37)                                                    tACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGACGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGTGTCCAAATGCAACACGTTTTATCCGTTCTGGACTTCACCCGCTAAc                                                                                               >  1:724922/1‑149 (MQ=255)                                                      cTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGACGCATGTGTAGGCGGGATGAGGCGTTTACGCCGCATCCGGCAATGGTGTCCAAATGCAACACGTTTTATCCGTTCTGGACTTCACGCGCTAACCa                                                                                             >  2:62697/1‑149 (MQ=255)                                                                  tGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGACGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGTGTCCAAATGCAACACGTTTTATCCGTTCTGGACTTCACCCGCTAACCAACGCGCCgcagc                                                                                 >  1:559327/1‑149 (MQ=255)                                                                       gATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGACGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGTGTCCAAATGCAACACGTTTTATCCGTTCTGGACTTCACCCGCTAACCAACGCGCCGCAGCAATaa                                                                            >  1:307548/1‑149 (MQ=255)                                                                        aTGCGACGCTGGCGCGTCTTATCCGACCTACGGGGACGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGTGTCCAAATGCAACACGTTTTATCCGTTCTGGACTTCACCCGCTAACCAACGCGCCGCAGCAATAAc                                                                           <  1:584130/149‑1 (MQ=255)                                                                           cGACGCTGGCGCGTCTTATCCGACCTACGGGGACGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGTGTCCAAATGCAACACGTTTTATCCGTTCTGGACTTCACCCGCTAACCAACGCGCCGCAGCAATAAcccc                                                                        <  1:456580/149‑1 (MQ=255)                                                                            gACGCTGGCGCGTCTTATCCGACCTACGGGGACGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGTGTCCAAATGCAACACGTTTTATCCGTTCTGGACTTCACCCGCTAACCCACGCGCCGCAGCACTAAccccc                                                                       >  1:75268/1‑149 (MQ=255)                                                                            gACGCTGGCGCGTCTTATCCGACCTACGGGGACGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGTGTCCAAATGCAACACGTTTTATCCGTTCTGGACTTCACCCGCTAACCAACGCGCCGCAGCAATAAccccc                                                                       >  1:92307/1‑149 (MQ=255)                                                                               gCTGGCGCGTCTTATCCTACCTACGGGGACGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGTGTCCAAATGCAACACGTTTTATCCGTTCTGGACTTCACCCGCTAACCAACGCGCCGCAGCAATAACCCCCTGc                                                                    <  1:86696/149‑1 (MQ=255)                                                                                  ggCGCGTCTTATCCGACCTACGGGGACGCGTGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGTGTCCAAATGCAACACGTTTTATCCGTTCTGGACTTCACCCGCTAACCAACGCGCCGCAGCAATAACCCCCTGcccc                                                                 <  1:358638/149‑1 (MQ=255)                                                                                  ggCGCGTCTTATCCGACCTACGGGGACGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGTGTCCAAATGCAACACGTTTTATCCGTTCTGGACTTCACCCGCTAACCAACGCGCCGCAGAAATAACCCCCTGcccc                                                                 >  1:131118/1‑149 (MQ=255)                                                                                     gcgTCTTATCCGACCTACGGGGACGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGTGTCCAAATGCAACACTTTTTATCCGTTCTGTACTTCACCCGCTAACCAACGCGCCGCAGCAATAACCCCCTGCCCCaga                                                              <  1:684001/149‑1 (MQ=255)                                                                                        tCTTATCCGACCTACGGGGACGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGTGTCCAAATGCAACACGTTTTATCCGTTCTGGACTTCACCCGCTAACCAACGCGCCGCAGCACTAACCCCCTGCCCCAGAGAc                                                           >  1:170666/1‑149 (MQ=255)                                                                                            aTCCGACCTACGGGGACGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGTGTCCAAATGCAACACGTTTTATCCGTTCTGGACTTCACCCGCTAACCAACGCGCCGCAGCAATAACCCCCTGCCCCAGAGACAAAc                                                       <  2:457741/149‑1 (MQ=255)                                                                                               cGACCTACGGGGACGCATGTGTAGGCCGGATAAGGTGTTTACGCCGCATCCGGCAATGGTGTCCAAATGCAACACGTTTTATCCGTTCTGGACTTCACCCGCTAACCAACGCGCCGCAGCAATAACCCCCTGCCCCAGAGACAAACCGc                                                    <  1:339814/149‑1 (MQ=255)                                                                                                 aCCTACGGGGACGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGTGTCCAAATGCAACACGTTTTATCCGTTCTGGACTTCACCCGCTAACCAACGCGCCGCAGCAATAACCCCCTGCCCCAGAGACAAACCGCCa                                                  >  2:722817/1‑149 (MQ=255)                                                                                                       gtggACGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGTGTCCAAATGCAACACGTTTTATCCGTTCTGGACTTCACCCGCTAACCAACGCGCCGCAGCAATAACCCCCTGCCCCAGAGACAAACCGCCATCAccc                                            >  2:207802/3‑149 (MQ=255)                                                                                                                  tgtAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGTGTCCAAATGCAACACGTTTTATCCGTTCTGGACTTCACCCGCTAACCAACGCGCCGCAGCAATAACCCCCTGCCCCAGAGACAAACCGCCATCACCCGCCGGTAAAct                                 <  1:207802/149‑1 (MQ=255)                                                                                                                    tAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGTGTCCAAATGCAACACGTTTTATCCGTTCTGGACTTCACCCGCTAACCAACGCGCCGCAGCAATAACCCCCTGCCCCAGAGACAAACCGCCATCACCCGCCGGTAAActct                               <  1:719875/149‑1 (MQ=255)                                                                                                                    tAGGCCGGATAAGGCGCTTACGCCGCATCCGGCAATGGTGTCCAAATGCAACACGTTTTATCCGTTCTGGACTTCACCCGCTAACCAACGCGCCGCAGCAATAACCCCCTGCCCCAGAGACAAACCGCCATCACCCGCCGGTAAActct                               <  2:256442/149‑1 (MQ=255)                                                                                                                             tAAGGCGGTTACGCCGCATCCGGCAATGGTGTCCAAATGCAACACGTTTTATCCGCTCTGGACTTCACCCGCTAACCAACGCGCCGCAGCAATAACCCCCTGCCCCAGAGACAAACCGCCATCACCCGCCGGTAAACTCTGTGGAAaga                      <  2:398275/149‑1 (MQ=255)                                                                                                                              aaGGCTTCTACGCGTGATCCGGCAATGGGGTCCAAATGCAACAGCTTTTATCCTTTGTGGACTTCACCCTCTAACCAACGCGCCGCAGCAAGAACCCCCTGCCCCAGAGACAAACCGCCATAACCCGCCGGTAAACTCTGTGGAAagag                     <  2:313967/149‑1 (MQ=255)                                                                                                                               aGGCGCTTACGCTCCACCCCGCAATGGTGTCCAAATGCAACACGTTTTATCCGTTCTGGACTTCCCCCGCTAACCAACGCGCCGCAGCAATAACCCCCTGCCCCAGAGACAAACCGCCATCACCCGCCGGTAAACTCTGTGGAAAGAGc                    <  1:512249/149‑1 (MQ=255)                                                                                                                                   gTTTACGCCGCATCCGGCAATGGTGTCCAAATGCAACACGTTTTATCCGTTCTGGACTTCACCCGCTAACCAACGCGCCGCAGCAATAAcccc                                                                        >  1:464413/1‑93 (MQ=255)                                                                                                                                   gTTTACGCCGCATCCGGCAATGGTGTCCAAATGCAACACGTTTTATCCGTTCTGGACTTCACCCGCTAACCAACGCGCCGCAGCAATAAcccc                                                                        <  2:464413/93‑1 (MQ=255)                                                                                                                                    tttACGCCGCATCCGGCAATGGTGTCCAAATGCAACACGTTTTATCCGTTCTGGACTTCACCCGCTAACCAACGCGCCGCAGCAATAACCCCCTGCCCCCGACACAAACCCCCATCACGCGCCGGAAAACTCTGTGGAAAGAGCCAtgt               >  2:339042/1‑149 (MQ=255)                                                                                                                                    tttACGCCGCATCCGGCAATGGTGTCCAAATGCAACACGTTTTATCCGTTCTGGAATTCACCCGCTAACCAACGCGCCGCAGCAATAACCCCCTGCGCCAGAGCCAAACCGCCATCACTCGCAGGTAAACTCTGTGGAAAGAGCAAtgt               >  2:340225/1‑149 (MQ=255)                                                                                                                                        cgccgcATCCGGCAATGGTGTCCAAATGCAAAACGTTTTATCCGTTCTGGACTTCACACGCTAACCAACGAGCCGCAGCAATAACCCCCTGCCCCAGAGACAAAACGCCATGACCCGCAGATAACGTCTGTGGAAAGAGCGATGTGaaa           >  1:306402/1‑149 (MQ=255)                                                                                                                                         gccgcATCCGGCAATGGTGTCCAAATGCAACAGGTTTTATCCGTTCTGGACTTCACCCGCTAACCAACGCGCCGCAGCAATAACCCCCTGCCCCAGAGACAAACCGCCATCACCCGCCGGTAAACTCTGTGGAAAGAGCAATGTGAAAt          >  1:616970/1‑149 (MQ=255)                                                                                                                                         gccgcATCCGGCAATGGTGTCCAAATGCAACACGTTTTATCCGATCTGGACTTCACCCGCTAACCAACGCGCCGCAGCAATAACCCCCTGCCCCAGAGACAAAACGCCATCACCCGCCGGTAAACTCTGTGGAAAGAGCAATGTCAAAt          >  1:293998/1‑149 (MQ=255)                                                                                                                                                 cGGCAATGGTGTCCAAATGCAACACGTTTTATCCGTTCTGGACTTCACCCGCTAACCAACGCGCCGCAGCAATAACCCCCTGCCCCAGAGACAAACCGCCATCACCCGCCGGTAAACTCTGTGGAAAGAGCAATGTGAAATCAGCgaga  >  1:437506/1‑149 (MQ=255)                                                                                                                                                    |                                                                                                                                                  CGGATGAAAGAGGCATTTGGATTGTTGAAAACATTGCCGATGTAGGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGACGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGTGTCCAAATGCAACACGTTTTATCCGTTCTGGACTTCACCCGCTAACCAACGCGCCGCAGCAATAACCCCCTGCCCCAGAGACAAACCGCCATCACCCGCCGGTAAACTCTGTGGAAAGAGCAATGTGAAATCAGCGAGA  >  NC_000913_3_pae_tpiA/2835001‑2835293

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.