New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_hsa_tpiA	3070003 =	NA (NA)	5 (0.130)	5/270	4.9	12.2%	noncoding (1/98 nt)	RIP213 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site	RIP213 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site
	?	NC_000913_3_hsa_tpiA	3216675 =	36 (0.900)					noncoding (75/78 nt)	REP228 (repetitive extragenic palindromic) element; contains 2 REP sequences	REP228 (repetitive extragenic palindromic) element; contains 2 REP sequences
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

GGGCAGTCTGACAAGGGTAAACAATAAAGCATAATTTTGCCAAATAGATCACAGATTTCTCATCTGAATCACCTTGCTTTTGGCGAAAAAATCCCCGCAGAGCGGGGCTCAGACAGATATCAATGTG‑CGCTTTGTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACCTGCAAATTCAATATATTGCAGGATACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTTTGCTTTTGGCGAAAAAAAGACCCGCAGAGCGGGCCTTGAGATAA  >  NC_000913_3_hsa_tpiA/3069865‑3070149                                                                                                                                            |                                                                                                                                                   gggCAGTCTGACAAGGGTAAACAATAAAGCATAATTTTGCCAAATAGATCACAGATTTCTCATCTGAATCACCTTGCTTTTGGCGAAAAAATCCCCGCAGAGCGGGGCTCAGACAGATATCAATGTG‑CGCTTTGTCATGCCGGATgcgg                                                                                                                                          <  2:312885/149‑1 (MQ=255)         tGACAAGGGTAAACAATAAAGCATAATTTTGCCGATTAGATCACAGATTTCTCATCTGAATCACCTTGCTTTTGGCGAAAAAATCCCCGCAGAGCGGGGCTCAGACAGATATCAATGTG‑CGCTTTGTCATGCCGGATGCGGCGTGAACg                                                                                                                                  >  2:711086/1‑149 (MQ=255)          gACAAGGGTAAACAATAAAGCATAATTTTGCCAAATAGATCACAGATTTCTCATCTGAATCACCTTGCTTTTGGCGAAAAAATCCCCGCAGAGCGGGGCTCAGACAGATATCAATGTG‑CGCTTTGTCGTGCCGGATGCGGCGGGAACGc                                                                                                                                 >  1:107253/1‑149 (MQ=255)             aaGGGTAAACAATAAAGCATAATTTTGCCAAATAGATCACAGATTTCTCATCTGAATCACCTTGCTTTTGGCGAAAAAATCCCCGCAGAGCGGGGCTCAGACAGATATCAATGTG‑CGCTTTGTCATGCCGGATGCGGCGTGAACGCCtt                                                                                                                              >  2:420840/1‑149 (MQ=255)             aaGGGTAAACAATAAAGCATAATTTTGCCAAATAGATCACAGATTTCTCATCTGAATCACCTTGCTTTTGGCGAAAAAATCCCCGCAGAGCGGGGCTCAGACAGATATCAATGTG‑CGCTTTGTCATGCCGGATGCGGCGTGAACGCCtt                                                                                                                              >  1:623654/1‑149 (MQ=255)               gggTAAACAATAAAGCATAATTTTGCCAAATAGATCACAGATTTCTCATCTGAATCAACTTGCTTTTGGCGAAAAAATCCCCGCAGAGCGGGGCTCAGACAGATATCAATGTG‑CGCTTTGTCATGCCGGATGCGGCGTGAACGCCTTAt                                                                                                                            >  1:604213/1‑149 (MQ=255)                  tAAACAATAAAGCATAATTTTGCCAAATAGATCACAGATTTCTCATCTGAATCACCTTGCTTTTGGCGAAAAAATCCCCGCAGAGCGGGGCTCAGACAGATATCAATGTG‑CGCTTTGTCATGCCGGATGCGGCGTGAACGCCTTATCCg                                                                                                                         <  2:242948/149‑1 (MQ=255)                   aaaCAATAAAGCATAATTTTGCCAAATAGATCACAGATTTCTCATCTGAATCACCTTGCTTTTGGCGAAAAAATCCCCGCAGAGCGGGGCTCAGACAGATATCAATGTG‑CGCTTTGTCATGCCGGATGCGGCGTGAACGCCTTATCCgg                                                                                                                        >  2:170190/1‑149 (MQ=255)                    aaCAATAAAGCATAATTTTGCCAAATAGCTCGCTGGTGTCTCAGCTGAATCTCCTTGCTTTTGGCGAAAAAATCCCCGCAGAGCGGGGCTCAGACAGATATCAATGTG‑CGCTTTGTCATGCCGGATGCGGCGTGAACGCCTTATCCGGc                                                                                                                       <  1:457538/149‑1 (MQ=38)                    aaCAATAAAGCATAATTTTGCCAAATAGATCACAGATTTCTCATCTGAATCACCTTGCTTTTGGCGACAAAATCCCCGCAGAGCGGGGCTCAGACAGATATCAATGTG‑CGCTTTGTCATGCCGGATGCGGCGTGAACGCCTTATCCGGc                                                                                                                       <  1:170190/149‑1 (MQ=255)                       aaTAAAGCATAATTTTGCCAAATAGATCACAGATTTCTCATCTGAATCACCTTGCTTTTGGCGAAAAAATCCCCGCAGAGCGGGGCTCAGACAGATATCAATGTG‑CGCTTTGTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTa                                                                                                                    >  1:423368/1‑149 (MQ=255)                         tAAAGCATAATTTTGCCAAATAGATCACAGATTTCTCATCTGAATCACCTTGCTTTTGGCGAAAAAATCCCCGCAGAGCGGGGCTCAGACAGATATCAATGTG‑CGCTTTGTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACa                                                                                                                  >  2:88652/1‑149 (MQ=255)                                 aaTTTTGCCAAATAGATCACAGATTTCTCATCTGAATCACCTTGCTTTTGGCGAAAAAATCCCCGCAGAGCGGGGCTCAGACAGATATCAATGTG‑CGCTTTGTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACCTg                                                                                                          <  1:337015/149‑1 (MQ=255)                                         cAAATAGATCACAGATTTCTCATCTGAATCACCTTGCTTTTGGCGAAAAAATCCCCGCAGAGCGGGGCTCAGACAGATATCAATGTG‑CGCTTTGTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACCTGCAAATTCa                                                                                                  <  2:423368/149‑1 (MQ=255)                                            agaGATCACAGATTGCTCATCTGAATCACCTTGCTTTTGGCGAAAAAATCCCCGCAGAGCGGGGCTCAGACAGATATCACTGTG‑CGCTTTGTCATGCCGGATCCGGCGTGAACGCCTTATCCGGCCTACAAAAACCGGCAAATTCAata                                                                                               <  1:30630/147‑1 (MQ=255)                                                 tCACAGATTTCTCATCTGAATCACCTTGCTTTTGGCGAAAAAATCCCCGCAGAGCGGGGCTCAGACAGATATCAATGTG‑CGCTTTGTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACCTGCAAATTCAATATATTg                                                                                          >  2:614653/1‑149 (MQ=255)                                                      gagttCTCATCTGAATCACCTTGCTTTTGGCGAAAAAATCCCCGCAGAGCGGGGCTCAGACAGATATCAATGTG‑CGCTTTGTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACCTGCAAATTCAATATATTGCAGGa                                                                                     <  1:338811/146‑1 (MQ=255)                                                         ttCTCATCTGAATCACCTTGCTTTTGGCGAAAAAATCCCCGCAGAGCGGGGCTCAGACAGATATCAATGTG‑CGCTTTGTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACCTGCAAATTCAATATATTGCAGGATAc                                                                                  >  1:72254/1‑149 (MQ=255)                                                           ctcATCTGAATCACCTTGCTTTTGGCGAAAAAATCCCCGCAGAGCGGGGCTCAGACAGATATCAATGTG‑CGCTTTGTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACCTGCAAATTCAATATATTGCAGGATACgt                                                                                <  1:24302/149‑1 (MQ=255)                                                               tCTGAATCACCTTGCTTTTGGCGAAAAAATCCCCGCAGAGCGGGGCTCAGACAGATATCAATGTG‑CGCTTTGTCATGCCGGATGCGGCGTGAACGCCTTATACGGCCGACAAAGACCTTCAAATTCAATATATTGCAGGATACGTGTAg                                                                            >  1:559877/1‑149 (MQ=255)                                                                cTGAATCACCTTGCTTTTGGCGAAAAAATCCCCGCAGAGCGGGGCTCAGACAGATATCAATGTG‑CGCTTTGTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACCTGCAAATTCAATATATTGCAGGATACGTGTAgg                                                                           >  2:404531/1‑149 (MQ=255)                                                                       aCCTTGCTTTTGGCGAAAAAATCCCCGCAGAGCGGGGCTCAGACAGATATCAATCTG‑CGCTTTGTCATGCCGGATGCGGCGTGAACGCCTTATCCCGCCAACAAAAACCTGCAAATTCAATATAGTGCAGGCTACGTGTAGGCCTGATa                                                                    >  2:490023/1‑149 (MQ=37)                                                                          ttGCTTTTGGCGAAAAAATCCCCGCAGAGCGGGGCTCAGACAGATATCAATGTG‑CGCTTTGTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACCTGCAAATTCAATATATTGCAGGATACGTGTAGGCCTGATAAGc                                                                 >  1:145175/1‑149 (MQ=255)                                                                              ttttGGCGAAAAAATCCCCGCAGAGCGGGGCTCAGACAGATATCAATGTG‑CGCTTTGTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACCTGCAAATTCAATATATTGCAGGATACGTGTAGGCCTGATAAGCGTAg                                                             >  2:178214/1‑149 (MQ=255)                                                                                   gCGAAAAAATCCCCGCAGAGCGGGGCTCAGACAGATATCAATGTG‑CGCTTTGTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACCTGCAAATTCCATGTATTGGAGGGTACGTGTAGGCCTGGTAAGCGTAgcgcgt                                                        >  1:16914/1‑147 (MQ=25)                                                                                     gAAAAAATCCCCGCAGAGCGGGGCTCAGACAGATATCAATGTG‑CGCTTTGTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACCTGCAAATTCAATATATTGCAGGATACGTGTAGGCCTGATAAGCGTAGCGCATCa                                                      >  1:515163/1‑149 (MQ=255)                                                                                       aaaaaCCCCCGCAGAGCGGGGCCCATACAGATATCAATGTG‑CGCGTTGTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACCTGCAAATTCAATATATTGCAGGATACGTGTAGGCCTGATAAGCGTAGCGCATCAgg                                                    <  1:217585/149‑1 (MQ=255)                                                                                               ccGCAGAGCGGGGCTCAGACAGATATCAATGTG‑CGCTTTGTCATGCCGGCTGCGGCGTGGACGCCTTATCCGGCCTACAAAAACCTGTAACTTCAATATATTGCAGGATACTGGTCGGCCTGATAGACGTAACGCATAAGGCAAttttt                                            >  2:108471/1‑148 (MQ=21)                                                                                               ccGCAGAGCGGGGCTCAGACAGATATCAATGTG‑CGCTTTGTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACCTGCAAATTCAATATATTGCAGGATACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTTTg                                            >  2:715677/1‑149 (MQ=255)                                                                                                cGCAGAGCGGGGCTCAGACAGATATCAATGTG‑CGCTTTGTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACCTGCAAATTCAATATATTGCAGGATACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTTTGc                                           <  2:158025/149‑1 (MQ=255)                                                                                                 gCAGAGCGGGGCTCAGACAGAGATCAA‑GTGTCGCTTTGTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACCTGCAAATTCAATATATTGCAGGATACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTTTGCt                                          <  2:686381/149‑1 (MQ=255)                                                                                                           gCTCAGACAGATATCAATGTG‑CGCTTTGTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACCTGCAAATTCAATATATTGCAGGATACGTGTAGGc                                                                          >  2:262835/1‑107 (MQ=255)                                                                                                           gCTCAGACAGATATCAATGTG‑CGCTTTGTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACCTGCAAATTCAATATATTGCAGGATACGTGTAGGc                                                                          <  1:262835/107‑1 (MQ=255)                                                                                                                 acagaTATCAATGTG‑CGCTTTGTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACCTGCAAATTCAATATATTGCAGGATACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTTTGCTTTTGGCGAACAAAAGa                          >  2:699182/1‑149 (MQ=255)                                                                                                                     atatCAATGTG‑CGCTTTGTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACCTGCAAATTCAATATATTGCAGGATACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTTTGCTTTTGGCGAAAAAAAGACCCg                      >  1:465931/1‑149 (MQ=255)                                                                                                                       atCAATGTG‑CGCTTTGTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACCTGCAAATTCAATATATTGCAGGATACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTTTGCTTTTGGCGAAAAAAAGACCCGCa                    >  1:172047/1‑149 (MQ=255)                                                                                                                               g‑cgcTTTGTCATGCCGGATGCGGCGGGAACGCCTTATCCGGCCTACAAAAACCTGCAAATTCAATATATTGCAGGATACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTTTGCTTTTGGCGAAAAAAAGACCCGCAGAGCGGGc            <  1:183156/149‑1 (MQ=255)                                                                                                                                    tttGTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACCTGCAAATTCAATATATTGCAGGATACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTTTGCTTTTGGCGAAAAAAAGACCCGCAGAGCGGGCCTTg        <  1:404531/149‑1 (MQ=255)                                                                                                                                     ttGTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACCTGCAAATTCAATATATTGCAGGATACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTTTGCTTTTGGCGAAAAAAAGACCCGCAGAGCGGGCCTTga       <  1:124865/149‑1 (MQ=255)                                                                                                                                         caggCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACCTGCAAATTCAATATATTGCAGGATACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTTTGCTTTTGGCGAAAAAAAGACCCGCAGAGCGGGCCTTGAGATa   <  2:623654/146‑1 (MQ=255)                                                                                                                                          aTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACCTGCAAATTCAATATATTGCAGGATACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTTTGCTTTTGGCGAAAAAAAGACCCGCAGAGCGGGCCTTGAGATaa  <  1:178214/149‑1 (MQ=255)                                                                                                                                            |                                                                                                                                                   GGGCAGTCTGACAAGGGTAAACAATAAAGCATAATTTTGCCAAATAGATCACAGATTTCTCATCTGAATCACCTTGCTTTTGGCGAAAAAATCCCCGCAGAGCGGGGCTCAGACAGATATCAATGTG‑CGCTTTGTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAACCTGCAAATTCAATATATTGCAGGATACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTTTGCTTTTGGCGAAAAAAAGACCCGCAGAGCGGGCCTTGAGATAA  >  NC_000913_3_hsa_tpiA/3069865‑3070149

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.