New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	2236680 =	49 (1.250)	5 (0.130)	5/272	5.0	9.3%	noncoding (147/150 nt)	REP156 (repetitive extragenic palindromic) element; contains 3 REP sequences	REP156 (repetitive extragenic palindromic) element; contains 3 REP sequences
	?	NC_000913_3_pae_tpiA	3639209 =	NA (NA)					noncoding (1/98 nt)	RIP261 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site	RIP261 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

TGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCTTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTCCTGTAATCGTACGCACCAAAACGAGCGGGTCAGCTGGCCCGCTTCAGATTGTGACATAGTGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACATGCAAATTCAATAGATTGCAGAGATTATGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTTTGCGTTTGTAATCAGTCTCGAGCGGGTCAGTTTACTGGCCCGCT  >  NC_000913_3_pae_tpiA/3639062‑3639355                                                                                                                                                    |                                                                                                                                                   agATGGCCTGGGTGTTTACCCTTGCGGCTGCGGTACTGCTTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTCCTGTAATCGTATGCAACAAAACGAGCGGGTCAGCTGGTCCGCTTCAGATTGTGACATACTGCGCTTTGTTCATGc                                                                                                                                                   >  2:665351/2‑149 (MQ=255)    tGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCTTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTCCTGTAATCGTACGCACCAAAACGAGCGGGTCAGCTGGCCCGCTTCAGATTGTGACATAGTGCGCTTTGTTCATGCCgg                                                                                                                                                >  1:99194/1‑149 (MQ=255)          gggTGTTTACCCTTCCGGCTGCGGTACTGCTTTCCGGCGGGCTATACTGGCTCTCCTTGCAGTTCCTGTAATCGTACGCACCAAAACGAGCGGGTCAGCTGGCCCGCTTCAGATTGTGACATAGTGCGCTTTGTTCATGCCGGATgcgg                                                                                                                                          >  1:434669/1‑149 (MQ=255)                      ttCCGGCTGCGGTACTGCTTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTCCTGTAATCGTACGCACCAAAACGAGCGGGTCAGCTGGCCCGCTTCAGATTGTGACATAGTGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCtt                                                                                                                              >  1:494020/1‑149 (MQ=255)                      ttCCGGCTGCGGTACTGCTTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTCCTGCGATCGTACGCACCAAAACGAGCGGGTCAGCTGGCCCGCTTCAGATTGTGACATAGTGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCtt                                                                                                                              >  1:502932/1‑149 (MQ=255)                                 gTACTGCTTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTCCTGTAATCGTACGCACCAAAACGAGCGGGTCAGCTGGCCCGCTTCAGATTGTGACATAGTGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTAc                                                                                                                   <  2:176599/149‑1 (MQ=255)                                 gTACTGCTTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTCCTGTAATCGTACACACCAAAACGAGCGGGTCAGCTGGCCCGCTTCAGATTGTGACATAGTGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTAc                                                                                                                   >  2:588158/1‑149 (MQ=255)                                                gtcttGTCCTGGCCCTCCTTGCAGTTCCGGTAATCGTACGCACCAAAACGAGCGGGTCAGCTGGCCCGCTTCAGATGGTGACATAGTGCGCTTTGTTCATGCCGCATGCGGCGTGAACGCCTTTTCCGGCCTACAAAAACATGCAAAtt                                                                                                    <  1:278718/145‑1 (MQ=255)                                                         tGGCTCTCCTTGCAGTTCCTGTAATCGTACGCACCAAAACGAGCGGGTCAGCTGGCCCGCTTCAGATTGTGACATAGTGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACATGCAAATTCAATAGAtt                                                                                           >  1:291037/1‑149 (MQ=255)                                                            ctctCCTTGCAGTTCCTGTAATCGTACGCACCAAAACGAGCGGGTCAGCTGGCCCGCCTCAGATTGTGACATAGTGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACATGCAAATTCAATAGATTGCa                                                                                        <  1:256076/149‑1 (MQ=255)                                                            cccgccTTTCAGTGCCTGTATTCGTACGCACGAAACGGAGCGGGTCAGCTGGCCCGCTTCAGATTGTGACATAGTGCGCTTTGTTCATGCCGGATGCGGCGTGCACGGCTTAGCCGGCCGACAAAAACATGCAAATTCCATAGATTGCa                                                                                        <  2:96162/145‑1 (MQ=25)                                                                 cTTGCAGTTCCTGTAATCGTACGCACCAAAACGAGCGGGTCAGCTGGCCCGCTTCAGATTGTGACATAGTGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACATGCAAATTCAATAGATTGCAGAGAt                                                                                   >  2:663463/1‑149 (MQ=255)                                                                  ttGCAGTTCCTGTAATCGTACGCACCAAAACGAGCGGGTCAGCTGGCCCGCTTCAGATTGTGACATAGTGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACATGCAAATTCAATAGATTGCAGAGAtt                                                                                  <  1:181175/149‑1 (MQ=255)                                                                    gCAGTTCCTGTAATCGGACGCACCAAAACGAGCGGGTCAGCTGGCCCGCTTCAGATTGTGACATAGTGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACATGCAAATTCAATAGATTGCAGAGATTAt                                                                                <  2:716153/149‑1 (MQ=255)                                                                        ttCCTGTAAGCGTACGCACCAAAACGAGCGGGTCAGCTGGCCCGCTTCAGATTGTGACATAGTGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACATGCAAATTCAATAGATTGCAGAGATTATGTAg                                                                            <  1:418227/149‑1 (MQ=255)                                                                            tGTAATCGTACGCACCAAAACGAGCGGGTCAGCTGGCCCGCTTCAGATTGTGACATAGTGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACATGCAAATTCAATAGATTGCAGAGATTATGTAGGc                                                                          >  2:120628/1‑147 (MQ=255)                                                                            tGTAATCGTACGCACCAAAACGAGCGGGTCAGCTGGCCCGCTTCAGATTGTGACATAGTGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACATGCAAATTCAATAGATTGCAGAGATTATGTAGGc                                                                          <  1:120628/147‑1 (MQ=255)                                                                            tGTAATCGTACGCACCAAAACGAGCGGGTCAGCTGGCCCGCTTCAGATTGTGACATAGTGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACATGCAAATTCAATAGATTGCAGAGATTATGTAGGCCt                                                                        >  1:422745/1‑149 (MQ=255)                                                                            agcaagagTACGTAGCAAACCGAGCGGGTCAGGTGGCCTGCTTAAGATTGTGACATAGTGCTCTTTGTTCAGGCCGGCTGGGGCTTGAACGCTTTATACGGCCTCCAACAACATCCAAATTCAATAGATTGCAGAGATTATGTAGGCCt                                                                        <  2:135943/142‑1 (MQ=255)                                                                              tAATCGTACGCACCAAAACGAGCGGGTCAGCTGGCCCGCTTCAGATTGTGACATAGTGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACATGCAAATTCAATAGATTGCAGAGATTATGTAGGCCTGa                                                                      <  2:434669/149‑1 (MQ=255)                                                                               aaTCGTACGCACCAAAACGAGCGGGTCAGCTGGCCCGCTTCAGATTGTGACATAGTGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACATGCAAATTCAATAGACTGCAGAGATTATGTAGGCCTGAt                                                                     <  2:626958/149‑1 (MQ=255)                                                                                 tCGTACGCACCAAAACGAGCGGGTCAGCTGGCCCGCTTCAGATTGTGACATAGTGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACATGCAAATTCAATAGATTGCAGAGATTATGTAGGCCTGATaa                                                                   >  2:412402/1‑149 (MQ=255)                                                                                   gttcGCACCAAAACGGGCGGGTCATCTGGCCCGCTTCAGATTGTGACATAGTTCGCTTTGTTCATGCCGGCTGCGGCGTGAACGCCTTATCCGGCCTACAAAAACATGCAAATTCAATAGATTGCAGAGATTATGTAGGCCTGATAAGc                                                                 <  1:665535/146‑1 (MQ=25)                                                                                                   gCGGGTCAGCTGGCCCGCTTCAGATTGTGACATAGTGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACATGCAAATTCAATAGATTGCAGAGATTATGTAGGCCTGATAAGCGTAGCGGATCAgtcga                                                 <  2:664252/149‑5 (MQ=255)                                                                                                       gTCAGCTGGCCCGCTTCAGATTGTGACATAGTGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACATGCAAATTCAATAGATTGCAGAGATTATGTAGGCCTGATAAGCGTAACGAATCAGGCAGtttt                                             >  1:336573/1‑149 (MQ=255)                                                                                                             tGGCCCGCTTCAGATTGTGACATAGTGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACATGCAAATTCAATAGATTGCAGAGATTATGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTTTGCGttt                                       <  2:291037/149‑1 (MQ=255)                                                                                                             tGGCCCGCTTCAGATTGTGACATAGCGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACATCCAAATTCAATAGATTGCAGACATTATGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTTTGCGttt                                       <  1:650282/149‑1 (MQ=255)                                                                                                                cccGCTTCAGATTGTGACATAGTGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACATGCAAATTCAATAGATTGCAGAGATTATGTAGGCCTGATAAGCGGAGCGCATCAGGCAATTTTGCGCTGGTa                                    >  1:325142/1‑149 (MQ=255)                                                                                                                    cTTCAGATTGTGACATAGTGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACATGCAAATTCAATAGATTGCAGAGATTATGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTTTGCGTTTGTAATcc                                >  2:350292/1‑148 (MQ=255)                                                                                                                     ttCAGATTGTGACATAGTGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACATGCAAATTCAATAGATTGCAGAGATTATGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTTTGCGTTTGTAATCAg                               >  1:365274/1‑149 (MQ=255)                                                                                                                      tCAGATTGTGACATAGTACGCTTTCTTCATGCCGGATTCGGCGTGAACGCCTCATCCGGCCTACAAAAACGTGCAAATTCAATAGATTGCAGATATTATGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTTTGCGTTTGCAATCAGt                              <  1:665351/149‑1 (MQ=21)                                                                                                                        aGATTGTGACATAGTGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACATGCAAATTCAATAGATTGCAGAGATTATGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTTTGCGTTTGTAATCAGtct                            <  1:374609/149‑1 (MQ=255)                                                                                                                             gtgACATAGTGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACATGCAAATTCAATAGATTGCAGAGATTATGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTTTGCGTTTGTAATCAGTCTCGAGc                       <  1:574672/149‑1 (MQ=255)                                                                                                                              tgACATAGTGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGGCTACAAAACCATGCAAATTAACTAGATTGAAGAGAATACGTAGGACTGCTAAATGCAACGCGTCAGGCAATTGTGCGGCTGTTATCAGTCTCGAGCg                      >  2:427709/1‑149 (MQ=17)                                                                                                                                aCATAGTGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACATGCAAATTCAATAGATTGCAGAGATTATGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCTGCGTTTGTAATCAGTCTCGAGAggg                    >  1:573628/1‑149 (MQ=255)                                                                                                                                 cATAGTGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACATGCAAATTCAATAGATTGCAGAGATTATGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTTTGCGTTTGTAATCAGTCTCGAGCGGGt                   <  1:588158/149‑1 (MQ=255)                                                                                                                                 cATAGTGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACATGCAAATTCAATAGATTGCAGAGATTATGTAGGCCTGATAAGCATAGCGCAGAAGGCAATTTTGCGTTTGTAATCAGTCTCGAGCGGGt                   >  1:497706/1‑149 (MQ=255)                                                                                                                                  aTAGTGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACATGCAAATTCAATAGATTGCAGAGATTATGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTTTGCGTTTGTAATCAGTCTCGAGCGGGTc                  >  1:127444/1‑149 (MQ=255)                                                                                                                                   tAGTGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACATGCAAATTCAATAGATTGCAGAGATTATGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTTTGCGTTTGTAATCAGTCTCGAGCGGGTCa                 <  2:365274/149‑1 (MQ=255)                                                                                                                                       gcgcTTTGTTCAGGTCGGAGGCGGCGTGAACGCCTGACCCACCCAACGCGGTTATGCAAATTCAATAGATTGCAGAGATTATGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTTTGCGTTTGTAATCAGTCTCGAGCGGGTCAGttt             <  1:703752/149‑1 (MQ=21)                                                                                                                                        cgcTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACATGCAAATTCAATAGATTGCAGAGATTATGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTTTGCGTTTGTAATCAGTCTCGAGCggg                    <  2:423582/141‑1 (MQ=255)                                                                                                                                        cgcTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACATGCAAATTCAATAGATTGCAGAGATTATGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTTTGCGTTTGTAATCAGTCTCGAGCggg                    >  1:423582/1‑141 (MQ=255)                                                                                                                                        cgcTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACATGCAAATTCAATAGATTGCAGAGATTATGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTTTGCGTTTGTAATCAGTCTCGAGCGGGTCAGTTTa            <  2:494020/149‑1 (MQ=255)                                                                                                                                               ttCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACATGCAAATTCAATAGATTGCAGAGATTATGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTTTGCGTTTGTAATCAGTCTCGAGCGGGTCAGTTTACTGGccc     >  1:230306/1‑149 (MQ=255)                                                                                                                                                  aTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAACCACGCAAATTCAATAGATTGCAGAGATTATGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTTTGCGTTTGTAATCAGTCTCGAGCGGGTCAGTCTACTGGCCCGCt  >  2:121539/1‑149 (MQ=255)                                                                                                                                                    |                                                                                                                                                   TGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCTTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTCCTGTAATCGTACGCACCAAAACGAGCGGGTCAGCTGGCCCGCTTCAGATTGTGACATAGTGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACATGCAAATTCAATAGATTGCAGAGATTATGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTTTGCGTTTGTAATCAGTCTCGAGCGGGTCAGTTTACTGGCCCGCT  >  NC_000913_3_pae_tpiA/3639062‑3639355

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.