New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_hsa_tpiA	411078 =	NA (NA)	6 (0.130)	6/266	5.2	14.6%	noncoding (1/191 nt)	REP35 (repetitive extragenic palindromic) element; contains 4 REP sequences	REP35 (repetitive extragenic palindromic) element; contains 4 REP sequences
	?	NC_000913_3_hsa_tpiA	4295963 =	35 (0.790)					noncoding (147/600 nt)	RIP321 (repetitive extragenic palindromic) element; contains 11 REP sequences and 4 IHF sites	RIP321 (repetitive extragenic palindromic) element; contains 11 REP sequences and 4 IHF sites
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

GTTGGGCAGTTGATTAAACAATTTGTCTTCGGCGGCGAATGTGAAACGCCGGTGCGTAAGGCGAAGCACGGTGATTCCAGCGGCGTACGCGGCGCTGCGTGGTTATGGCCACAAGAGTAAAAAACGTAGGCAATTGGCGCATCATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAAGGTGCCAGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAATAAGTGCTCCGATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTGCAAAATGT  >  NC_000913_3_hsa_tpiA/410933‑411223                                                                                                                                                  |                                                                                                                                                  gTTGGGCAGTTGATTAAACAATTTGTCTTCGGCGGCGAATGTGAAACGCCGGTGCGTAAGGCGAAGCACGGTGATTCCAGCGGCGTACGCGGCGCTGCGTGGTTATGGCCACAAGAGTAAAAAACGTAGGCAATTGGCGCATCATGCCt                                                                                                                                                <  1:631845/149‑1 (MQ=255)     ggCAGTTGATTAAACAATTTGTCTTCGGCGGCGAATGTGAAACGCCGGTGCGTAAGGCGAAGCACGGTGATTCCAGCGGCGTCCGCGGCGCTGCGTGGTTATGGCCACAAGAGCACAAAACGTCGGCAATTGGCGCATCAGGCCTGATg                                                                                                                                            >  1:584248/1‑149 (MQ=255)     ggCAGTGGATTAAACAATTTGTCTTCGGCGGCGAATGTGAAACGCCGGTGCGTAAGGCGAAGCACGGTGATTCCAGCGGCGTACGCGGCGCTGCGTGGTTATGGCCACAAGAGTAAAAAACGTAGGCAATTGGCGCATCATGCCTGATg                                                                                                                                            <  1:61703/149‑1 (MQ=255)      gCAGTTGATTAAACAATTTGTCTTCGGCGGCGAATGTGAAACGCCGGTGCGTAAGGCGAAGCACGGTGATTCCAGCGGCGTACGCGGCGCTGCGTGGTTATGGCCACAAGAGTAAAAAACGTAGGCAATTGGCGCATCATGCCTGATGc                                                                                                                                           <  1:695689/149‑1 (MQ=255)        aggtGATTAAACAATTTGTCTTCGGCGGCGAATGTTAAACGCCGGCGCGTAAGGCGAAGCACGGTGATTCCAGCGGCGTACGCGGCGCTGCGTGGTTATGGCCACAAGAGTAAAAAACGTAGGCAATTGGCGCATCATGCCTGATGCGa                                                                                                                                         <  1:15009/146‑1 (MQ=255)         gTTGATTAAACAATTTGGCTTCGGCGGCGAATGTGAAACGCCGGTGCGTAAGGCGAAGCACGGTGATTCCAGCGGCGTACGCGGCGCTGCGTGGTTATGGCCACAAGAGTAAAAAACGTAGGCAATTGGCGCATCATGCCTGATGCGAc                                                                                                                                        <  2:518284/149‑1 (MQ=255)             aTTAAAGAATTTGTCTTCGGCGGCGAATGTGAAACGCCGGTGCGTAAGTCGAAGCACGGTAATTCCAGCGGCGTACGCGGGGCTGCGTGGTTATGGCCACAAAAGGAAGAAACGTAGGCAATTGTCGCCGCATGCCTGATGCAACGCtt                                                                                                                                    >  2:361791/1‑149 (MQ=255)             aTTAAACAATTTGTCTTCGGCGGCGAATGTGAAACGCCGGTGCGTAAGGCGAAGCACGGTGATTCCAGCGGCGTACGCGGCGCTGCGTGGTTATGGCCACATTAGGAAAAAACGTAGGCAATTGGCGCATCATGCCTGATGCGACGCtt                                                                                                                                    >  1:684080/1‑149 (MQ=255)             aTTAAACAATTTGTCTTCGGCGGCGAATGTGAAACGCCGGTGCGTAAGGCGAAGCACGGTGATTCCAGCGGCGTACGCGGCGCTGCGTGGTTATGGCCACAAGAGTAAAAAACGTAGGCAATTGGCGCATCATGCCTGATGCGACGCtt                                                                                                                                    >  2:13992/1‑149 (MQ=255)                aaaCAATTTGTCTTCGGCGGCGAATGTGAAACGCCGGTGCGTAAGGCGAAGCACGGTGATTCCATCGGCGTACGCGGCGCTGCGTGGTTATGGCCACAAGAGTAAAAAACGTAGGCAATTGGCGCATCATGCCTGCTGCGACGCTTGcc                                                                                                                                 >  1:163161/1‑149 (MQ=255)                 aaCAATTTGTCTTCGGCGGCGAATGTGAAACGCCGGTGCGTAAGGCGAAGCACGGTGATTCCAGCGGCGTACGCGGCGCTGCGTGGTTATGGCCACAAGAGTAAAAAACGTAGGCAATTGGCGCATCATGCCTGATGCGACGCTTGCcg                                                                                                                                >  1:701066/1‑149 (MQ=255)                 aaCAATTTGTCTTCGGCGGCGAATGTGAAACGCCGGTGCGTAAGGCGAAGCACGGTGATTCCAGCGGCGTACGCGGCGCTGCGTGGTTATGGCCACAAGAGTAAAAAACGTACGCAATTGGCGCATCATGCCTGATGCGACGCTTCCcg                                                                                                                                >  1:119899/1‑149 (MQ=255)                    aaTTTGTCTTCGGCGGCGAATGTGAAACGCCGGTGCGTAAGGCGAAGCGAGGGGATTCCAGCGGCGTACGCGGCGCTGCGTGGTTATGGCCACAAGAGTAAAAAACGTAGGCAATTGGCGCATCATGCCTGATGCGACGCTTGCcgcgc                                                                                                                             >  2:551310/1‑148 (MQ=255)                    aaTTTGTCTTCGGCGGCGAATGTGAAACGCCGGTGCGTAAGGCGAAGCACGGTGATTCCAGCGGCGTACGCGGCGCTGCGTGGTTATGGCCACAAGAGTAAAAAACGTAGGCAATTGGCGCATCATGCCTGATGCGACGCTTGCCGCGt                                                                                                                             >  2:644870/1‑149 (MQ=255)                    aaTTTGTCTTCGGCGGCGAATGTGAAACGCCGGTGCGTAAGGCGAAGCACGGTGATTCCAGCGGCGTACGCGGCGCTGCGTGGTTATGGCCACAAGAGTAAAAAACGTAGGCAATTGGCGCATCATGCCTGATGCGACGCTTGCCGCGt                                                                                                                             >  2:499953/1‑149 (MQ=255)                    aaTTTGTCTTCGGCGGCGAATGTGAAACGCCGGTGCGTAAGGCGAAGCACGGTGATTCCAGCGGCGTACGCGGCGCTGCGTGGTTATGGCCACAAGAGTAAAAAACGTAGGCAATTGGCGCATCATGCCTGATGCGACGCTTGCCGCGt                                                                                                                             >  2:502350/1‑149 (MQ=255)                          tCTTCGGCGGCGAATGTGAAACGCCGGTGCGTAAGGCGAAGCACGGTGATTCCAGCGGCGTACGCGGCGCTGCGTGGTTATGGCCACAAGAGTAAAAAACGTAGGCAATTGGCGCATCATGCCTGATGCGACGCTTGCCGCGTCTTATc                                                                                                                       <  2:127728/149‑1 (MQ=255)                                     gAATGTGAAACGCCGGTGCGTAAGGCGAAGCACGGTGATTCCAGCGGCGTACGCGGCGCTGCGTGGTTATGGCCACAAGAGTAAAAAACGTAGGCAATTGGAGCATCATGCCTGATGCGAAGCTTGCCGCGTCTTATCAGGCATAaaaa                                                                                                            >  1:442827/1‑149 (MQ=255)                                      aaTGTGAAACGCCGGTGCGTAAGGCGAAGCACGGTGATTCCAGCGGCGTACGCGGCGCTGCGTGGTTATGGCCACAAGAGTAAAAAACGTAGGCAATTGGCGCATCATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACaaaa                                                                                                           >  2:446189/1‑149 (MQ=255)                                         gtgAAACGCCGGTGCGTAAGGCGAAGCACGGTGATTCCAGCGGCGTACGCGGCGCTGCGTGGTTATGGCCACAAGAGTAAAAAACGTAGGCAATTGGCGCATCATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAAGGt                                                                                                        <  1:103926/149‑1 (MQ=255)                                         gtgAAACGCCGGTGCGTAAGGCGAAGCACGGTGATTCCAGCGGCGTACGCGGCGCTGCGTGGTTATGGCCACAAGAGTAAAAAACGTAGGCAATTGGCGCATCATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAAGGt                                                                                                        >  2:190332/1‑149 (MQ=255)                                             aaCGGCGCTGCGTAAGGCGAGGCACGTTCGCTCCAGCGGTAGAGGCGGCGCTGCGTGGTTATGGCCACAAGAGTAAAAAACGTAGGCAATTGGCGCATCATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAAGGTGCCa                                                                                                    <  2:584248/149‑1 (MQ=37)                                                 ccGGTGCGTAAGGCGAAGCACGGTGATTCCAGCGGCGTACGCGGCGCTGCGTGGTTATGGCCACAAGAGTAAAAAACGTAGGCAATTGGCGCATCATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAAGGTGCCAGAAc                                                                                                <  1:499953/149‑1 (MQ=255)                                                         tAAGGCGAAGCACGGTGATTCCAGCGGCGTACGCGGCGCTGCGTGGTTATGGCCACAAGATTAAAAAACGTAGGCAATTGGCGCATCATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAAGGTGCCAGAACCGTAGGcc                                                                                        >  1:129862/1‑149 (MQ=255)                                                                  gCACGGTGATCCCAGGGGCGTACGCGGCGTTGCGTGGTTATGGCCACAAGAGTAAAAAACGTAGGCAATTGGCGCATCATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAAGGTGCCAGAACCGTAGGCCGGATAAGGc                                                                               <  1:512125/149‑1 (MQ=255)                                                                     cGGTGATTCCAGCGGCGTACGCGGCGCTGCGTGGTTATGGCCACAAGAGTAAAAAACGTAGGCAATTGGCGCATCATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAAGGTGCCAGAACCGTAGGCCGGATAAGGCGtt                                                                            <  1:190332/149‑1 (MQ=255)                                                                      ggTGATTCCAGCGGCGTACGCGGCGCTGCGTGGTTATGGCCACAAGAGTAAAAAACGTAGGCAATTGGCGCATCATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAAGGTGCCAGAACCGTAGGCCGGATAAGGCGTTc                                                                           >  2:269062/1‑149 (MQ=255)                                                                           ttCCAGCGGCGTACGCGGCGCTGCGTGGTTATGGCCACAAGAGTAAAAAACGTAGGCAATTGGCGCATCATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAAGGTGCCAGAACCGTAGGCCGGATAAGGCGTTCAcgcc                                                                      <  1:653306/149‑1 (MQ=255)                                                                                   ggggaCGCGGCGCTGCGTGGTTATGGCCACAAGAGTAAAAAACGTAGGCAATTGGCGCATCATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAAGGTGCCAGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCgg                                                              <  2:684080/145‑1 (MQ=255)                                                                                   gcgTACGCGGCGCTGCGTGGTTATGGCCACAAGAGTAAAAAACGTAGGCAATTGGCGCATCATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAAGGTGCCAGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCgg                                                              <  1:446189/149‑1 (MQ=255)                                                                                          cggcgCTGCGGGGTTATGTCCACAAGAGTAAAAAACGTAGGCAATTGGCGCATCATGCCTGTTGCGACGGTTGCCGCGGCTTATCAGGCCTACAAAAGGTGCCAGATCCGTATGCCGGATAAGGCGTTGACGCCGCATCCGGCAATAAg                                                       <  2:191187/149‑1 (MQ=25)                                                                                             cgcTGCGTGGTTATGGCCACAAGAGTAAAAAACGTAGGCAATTGGCGCATCATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAAGGTGCCAGAACCGTAGGCCGGCTAAGGCGTTCACCCCCCATCCGGCAATAAGTGc                                                    >  2:417962/1‑149 (MQ=255)                                                                                               cTGCGTGGTTATGGCCACAAGAGTAAAAAACGTAGGCAATTGGCGCATCATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAAGGTGCCAGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAATAAGTGCTc                                                  <  1:644870/149‑1 (MQ=255)                                                                                                    tGGTTATGGCCACAAGAGTAAAAAACGTAGTCAATTGGCGCATCATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAAGGTGCCAGAACCGCAGGTCGGCATAGACCTACACGCCGCATCCGGCAATAAGTGCTCCGATg                                             >  2:586962/1‑149 (MQ=25)                                                                                                    tGGTTATGGCCACAAGAGTAAAAAACGTAGGCAATTGGCGCATCATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAAGGTGCCAGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAATAAGTGCTCCGATg                                             >  2:587562/1‑149 (MQ=255)                                                                                                           ggCCACAAGAGTAAAAAACGTAGGCAATTGGCGCATCATGCCTGATGCGACGCTTGCCGCCTCTTATCAGGCCTACAAAAGGTACCAGAACCGTAGGCCGGATAAGGCGTTCACGCCGCACCCGCCAATAAGAGCCCCCATGCCCGATg                                      >  2:370575/1‑149 (MQ=25)                                                                                                              cacaAGACTACANAACGTAGGCAATTGGCGCATCATTCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACACAATGTGCCAGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAATAAGTGCTCCGATGCCTGATGCGa                                   <  1:86847/149‑1 (MQ=25)                                                                                                                 aaGAGTAAAAAACGTAGGCAATTGGCGCATCATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAAGGTGCCAGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAATAAGTGCTCCGATGCCTGATGCGACGc                                >  1:82114/1‑149 (MQ=255)                                                                                                                   gagTAAAAAACGTAGGCAATTGGCGCATCATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAAGGTGCCAGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAATAAGTGCTCCGATGCCTGATGCGACGCtt                              <  1:13992/149‑1 (MQ=255)                                                                                                                        aagaaCGTAGGTACTTGGCGAATCATGCCGGATGCGACGGTTGCCTCGTCTTATCAGGCCTACAAAAGGTGCCAGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAATAAGTGCTCCGATGCCTGATGCGACGCTTGCcgc                         <  2:119899/146‑1 (MQ=25)                                                                                                                                            aatcagGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAAGGTGCCAGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAATAAGTGCTCCGATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTGCaaaa     <  1:502350/148‑1 (MQ=255)                                                                                                                                              tcatGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAAGGTGCCAGAACCGTAGGCCGGCTAAGGCGTTCACGCCGCATCCGGCAATAAGTGCTCCGCTGCCTGACGCGCCGCTTCCCGCGTATTATCAGGCCTGCaaaagg   >  1:25323/1‑147 (MQ=21)                                                                                                                                              tcatGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAAGGTGCCAGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAATAAGTGCTCCGATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTGCAAAAtg   <  1:336407/149‑1 (MQ=255)                                                                                                                                               caggCCTGATGCGACGCTTGCCGCGTCTAATCAGGCCTACAAAAGGTGCCAGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAATAAGTGCTCCGATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTGCAAAAtgt  <  1:222304/146‑1 (MQ=255)                                                                                                                                                  |                                                                                                                                                  GTTGGGCAGTTGATTAAACAATTTGTCTTCGGCGGCGAATGTGAAACGCCGGTGCGTAAGGCGAAGCACGGTGATTCCAGCGGCGTACGCGGCGCTGCGTGGTTATGGCCACAAGAGTAAAAAACGTAGGCAATTGGCGCATCATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAAGGTGCCAGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAATAAGTGCTCCGATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTGCAAAATGT  >  NC_000913_3_hsa_tpiA/410933‑411223

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ 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.