New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_hsa_tpiA	= 2714357	NA (NA)	4 (0.200) +GCGGCGTGAACGCCTTATCC	4/244	2.5	NA	noncoding (75/98 nt)	RIP188 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site	RIP188 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site
	?	NC_000913_3_hsa_tpiA	= 3563652	NA (NA)					noncoding (71/98 nt)	RIP256 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site	RIP256 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site

GTAAATTAACGTAAGGTGATCAGGTCAGATTTCAATCTGGCCTGAGACTGATGACAAACACAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACGTGGTTTATGCAATATATTGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTACCGCAAAGCCCACGCCATCATACCCAACGTAACAAAACTCAGGCACGTTCCCCACTCGCCCCGA  >  NC_000913_3_hsa_tpiA/3563515‑3563798                                                                                                                                          |                                                                                                                                                   gtAAATTAACGTAAGGTGATCAGGACAGATTTCAATCTAGCCTGAGACTGATGACAAACACAAAACTGCCTGATTCGCTACGCTTATCAGGCCTACGTCGTTTATGCAATATATTGAATTTGCATGGTCTTGTAGGCCAGATAAGACGt                                                                                                                                         >  2:372067/1‑149 (MQ=255)     aTTAAGGTAAGGTGATCAGGTCAGATTTCAACTTGGCATGAGACTGATGACAAACACAAAAGTGCCTGATGCGCTACGCTTATCAGGCCTACGTGGTTTATGCAATATATTGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCAc                                                                                                                                     <  2:149916/149‑1 (MQ=25)     aTTAACGTAAGGTGATCAGGTCAGATCTCAATCTGGCCTGAGACCGATGACAAACACAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACGTGGTTTATGCAATATATTGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCAc                                                                                                                                     <  1:347633/149‑1 (MQ=255)       gaaCGTAAGGTGAGCAGGTCAGATTTCAATCTGGCCTGAGACGGATGACAAACACAAAACTGCCTGATGCGCTACGCTGATCAGGCCTACGTGGTTTATGCAATATATTGAATTTGCATGGTCTTGTAGGCCAGCTCCGACGTTCAcct                                                                                                                                   <  2:266080/148‑3 (MQ=25)             aaGGTGATCAGGTCAGATTTCAATCTGGCCTGAGACTGATGACAAACACAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACGTGGTTTATGCAATATATTGCAGTGACATGGTCTTGTAGGCCAGATAAGACGTTTACGTCGCATc                                                                                                                             >  1:392093/1‑149 (MQ=25)                gTGATCAGGTCAGATTTCAATCTGGCCTGAGACTGATGACAAACACAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACATGGGTTATGCAATATATTGAATTTGCATGGTCTTCTAGCCCAGATAAGACGTTCACGTCGAATcccg                                                                                                                          >  2:273919/1‑147 (MQ=25)                    tCAGGTCAGATTTCAATCTGGCCTGAGACTGATGACAAACACAAAACTGCCTGATGCGCTACGCATATCAGGCCTACGTGGTTTATGCAATATATTGAATTTGCATGGTCTTGTAGTCCAGATAAGACGTTCACGTCGCATCCGGCAtc                                                                                                                      >  2:96732/1‑148 (MQ=255)                      aGGTCAGATTTCAATCTGGCCTGAGACTGATGACAAACACAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACGTGGTTTATGCAATATATTGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCCGCATGaa                                                                                                                    >  1:352089/1‑149 (MQ=255)                            ggttttAATCTGGTTTGAGAGTGATGAGAGACACAAAACTGCCTGATGCGCTACGCTTAGGAGGCCTACGTGGTTTATGCAATATATTGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAATAAAgc                                                                                                              <  2:7916/147‑1 (MQ=17)                                     cTGGGCTGAGTATTATGACAAACACAAAGCTGCCTGATGGGCTGGGCTTATGAGGCTTACGTGGTTTATGCAATTTATTGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGt                                                                                                     <  2:148544/149‑1 (MQ=21)                                                 tgatgaCAAACACAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACGTGGTTTATGCAATATATTGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAAc                                                                                         >  1:178242/1‑149 (MQ=255)                                                     gaCAAACACAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACGTGGTTTATGCAATATATTGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTAc                                                                                     >  1:72260/1‑149 (MQ=255)                                                      aCAAACACAAAACTGCCTGATGCGCTACCCTTATCAGGCCTACGTGGTTTATGCAATATATTGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACt                                                                                    >  1:417415/1‑149 (MQ=255)                                                                             gcTACGCTTATCAGGCCTACGTGGTTTATGCAATATATTGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTAccaac                                                             >  2:314168/1‑146 (MQ=255)                                                                               tACGCTTATCAGGCCTACGTGGATAATGCAATATATTGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCAAGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTACCGCcaa                                                           >  2:239273/1‑149 (MQ=255)                                                                                              tACGTGGTTTATGCAATATATTGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTaa                                                                                          <  1:233735/103‑1 (MQ=255)                                                                                              tACGTGGTTTATGCAATATATTGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTaa                                                                                          >  2:233735/1‑103 (MQ=255)                                                                                                        aTGCAATATATTGAATTTGCACGATCTTGTAGGCCggataaggcgttcacgccgcatccggcctacaagatcgtgcaaattcaatatattgcat                                                                                         >  2:124507‑M2/1‑35 (MQ=255)                                                                                                        aTGCAATATATTGAATTTGCACGATCTTGTAGGCCggataaggcgttcacgccgcatccggcctacaagatcgtgcaaattcaatatattgcat                                                                                         <  1:124507‑M2/94‑60 (MQ=255)                                                                                                           cAATATATTGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACGTTGTCAAAAATCGAACCTACTTTTTAATTCAGGGAATTACCGCAAAGCCCACGCCATGATACCCAACGTAACaa                               >  1:163590/1‑149 (MQ=255)                                                                                                              aatatTGAATTTGCATGGTCTTGTAGGCCAGATAAGACGCTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTATCCTACTTTTTAATTCAGGGAATTACCGCAAAGCCCACGCCATCATACCCAACGTAACAAAAc                            <  1:413941/148‑1 (MQ=255)                                                                                                                 atTGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTACCGCAAAGCCCACGCCATCATACCCAACGTAACAAAACTCa                         <  1:283444/149‑1 (MQ=255)                                                                                                                               gTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCATTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTACCGCAACGCCCACGCCATCATAACCAACGTAACAAAACTCAGACAGGTTcccccc           >  2:247995/1‑147 (MQ=38)                                                                                                                               gTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTACCGCAAAGCCCACGCCATCATACCCAACGTAACAAAACTCAGGCACGTTCCCCAc           >  1:135393/1‑149 (MQ=255)                                                                                                                                   tGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTACCGCAAAGCCCACGCCATCATACCCAACGTAACAAAACTCAGGCACGTTCCCCACTCGc       <  2:392093/149‑1 (MQ=255)                                                                                                                                     tAGGCCAGATAAGGCGTTCGCGTCGCATCCGCTATGAACAAAGCGCACTTTGTCAAAAATCTAACCTATTTTTTAATTAAGGGAATTACCGCAAGGCCCACGCCATCATACCCAACGTAACAAAACTCAGGCACGTTCCCCACTCGccc     <  2:146904/149‑1 (MQ=255)                                                                                                                                      aGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTACCGCAAAGCCCACGCCATCATACCCAACGTAACAAAACTCAGGCACGTTCCCCACTCGcccc    <  2:135393/149‑1 (MQ=255)                                                                                                                                        gCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTACCGCAAAGCCCACGCCATCATACCCAACGTAACAAAACTCAGGCACGTTCCCCACTCGCCCCga  <  1:341662/149‑1 (MQ=255)                                                                                                                                         ccggataaggcgttcacgccgcatccggcctacaagatcgtgcaaattcaatatattgcatgagccacgtaggcctgataagcgtagcgcatc                                                         >  2:392733‑M2/1‑2 (MQ=255)                                                                                                                                         ccggataaggcgttcacgccgcatccggcctacaagatcgtgcaaattcaatatattgcatgagccacgtaggcctgataagcgtagcgcatc                                                         <  1:392733‑M2/93‑92 (MQ=255)                                                                                                                                          |                                                                                                                                                   GTAAATTAACGTAAGGTGATCAGGTCAGATTTCAATCTGGCCTGAGACTGATGACAAACACAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACGTGGTTTATGCAATATATTGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTACCGCAAAGCCCACGCCATCATACCCAACGTAACAAAACTCAGGCACGTTCCCCACTCGCCCCGA  >  NC_000913_3_hsa_tpiA/3563515‑3563798

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ 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.