New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_hsa_tpiA	= 2304719	17 (0.440)	3 (0.080)	3/268	NT	13.1%	noncoding (303/655 nt)	REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences	REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences
	?	NC_000913_3_hsa_tpiA	= 2304926	23 (0.610)					noncoding (510/655 nt)	REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences	REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences

GCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATAAGGCGGTTACGCCGCATCCGACATCTAACGCCCAAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCAACATCTAACGCCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGCATACGC  >  NC_000913_3_hsa_tpiA/2304778‑2305072                                                                                                                                                     |                                                                                                                                                   gccgcATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAATGCTCCACCCCGTAGGTCGGATAAGGCGGTTACGCCGCATCCCACATCTAACGCCCAAGACGGTTGCCt                                                                                                                                                    >  2:448161/1‑149 (MQ=12)         cGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATAAGGCGGTTACGCCGCATCCGACATCTAACGCCCACGCCGGTTGCCTGATGCGAc                                                                                                                                            >  2:101995/1‑149 (MQ=17)         cGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATAAGGCGGTTACGCCGCATCCGACATCTAACGCCCAAGGCGGTTGCCTgatacgcc                                                                                                                                            <  1:295734‑M2/149‑9 (MQ=255)                 aaCGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATAAGGCGGTTACGCCGCATCCGACATCTAACGCCCAAGCCGGTTGCCTAATGCGACGCGGgcgc                                                                                                                                    >  1:549501/1‑149 (MQ=17)                 aaCGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCAACCCCGTAGGTCGGATAAGCCGGGTACGCCGCATCCGACATCTAACGCCCAAGGCGGTTGCACGATGCGACGCTGgcgc                                                                                                                                    >  1:496731/1‑149 (MQ=11)                                tGCCTGATGCCACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCCCCACCCCGTAGGTCGGATAAGGCGGTTACGCCGCATCCGACATCTAACGCCCAAGCCGGTTGCCTgataagacgcgccagcgtcgcatcaggcaac                                                                                                                     >  1:545575‑M2/1‑118 (MQ=255)                                                                                        ccccGTAGGTCGGATAAGGCGGTTACGCCGCATCCGACATCTAACGCCCAAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCa                                                             >  1:138784/1‑149 (MQ=11)                                                                                           cGTAGGTCGGATAAGGCGGTTACGCCGCATCCGACATCTAACGCCAAAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTGATCAGGCCCACACCGCTGCGAAGTGCTCCACCCCGTCGGTTGGATAAGGCGGTTACGCCGCCACCAACa                                                          >  1:158792/1‑149 (MQ=11)                                                                                                    gATAAGGCGGTTACGCCGCATCCGACATCTAACGCCCAAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACCCCGCTGTGACGTGCTCCACCCCGTAGGTTGGCTAAGGCGGGTACGCCGACTCCAACATCTCACGca                                                 >  2:349721/1‑148 (MQ=11)                                                                                                         ggCGGTTACGCCGCATCCGACATCTAACGCCCAAGCCGGTTGCCTgacgcgccagcgtcgcatcaggcaaccggcttgg                                                                                                                  >  1:366004‑M2/1‑45 (MQ=255)                                                                                                         ggCGGTTACGCCGCATCCGACATCTAACGCCCAAGCCGGTTGCCTgacgcgccagcgtcgcatcaggcaaccggcttgg                                                                                                                  <  2:366004‑M2/79‑35 (MQ=255)                                                                                                          gCGGTTACGCCGCATCCGACATCTAACGCCCAAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCACCATCTAACGCCCGAGcc                                           >  1:7131/1‑149 (MQ=37)                                                                                                          gCGGTTACGCCGCATCCGACATCTAACGCCCAAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCAACATc                                                        >  2:605872/1‑136 (MQ=33)                                                                                                          gCGGTTACGCCGCATCCGACATCTAACGCCCAAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCAACATc                                                        >  2:245005/1‑136 (MQ=32)                                                                                                          gCGGTTACGCCGCATCCGACATCTAACGCCCAAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCAACATc                                                        <  1:605872/136‑1 (MQ=32)                                                                                                          gCGGTTACGCCGCATCCGACATCTAACGCCCAAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCAACATc                                                        <  1:245005/136‑1 (MQ=33)                                                                                                          gCGGTCACGCCGCATCCGACATCTAACGCCCAAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCAACATCTaa                                                     >  1:440432/1‑139 (MQ=21)                                                                                                          gCGGTCACGCCGCATCCGACATCTAACGCCCAAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCAACATCTaa                                                     <  2:440432/139‑1 (MQ=25)                                                                                                                    cgcATCCGACATCTAACGCCCAAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCAACATCTAACGCCCGAGCCGGTTGCCTGa                                 >  1:631589/1‑149 (MQ=38)                                                                                                                    cgcATCCGACATCTAACGCCCAAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCAACATCTAACGCCCGAGCCGGTTGCCTGa                                 >  1:631395/1‑149 (MQ=38)                                                                                                                        tCCGACATCTAACGCCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCAACATCTACCGCCCGAGCCGGTTGCCTGATGCg                             <  1:251816/149‑1 (MQ=255)                                                                                                                           gACATCTAACGCCCAAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAACTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCAACATCCAACGCCCGAGCCGGTTGCCTGATGccccc                          >  2:495508/1‑145 (MQ=12)                                                                                                                                cTAACGCCCAAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCAACATCTAACGCCCGAGCCGGTTGCCTGATGCGACGCTGgc                     >  2:510423/1‑149 (MQ=37)                                                                                                                                cTAACGCCCAAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCAACATCTAACGCCCGAGCCGGTTGCCTGATGCGACGCTGgc                     >  1:132492/1‑149 (MQ=37)                                                                                                                                 tAACGCCCAAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGATACGCCGCATCCAACATCTAACGCCCGAGCCGGTTGCCTGATGCGACGCTGgcg                    >  1:632128/1‑149 (MQ=38)                                                                                                                                         gaGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGCCCTCCCCCGCTGTGAAGTGCTCCACCCCGTAGGTCGGACAAGGCGGACGCGCCACCTCCAACAGCTAACGGCCGAGCCGGGTGCCGTATGCTACGCCGCAGCGTCttgt            >  2:164849/2‑147 (MQ=2)                                                                                                                                         aaGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCAACATCTAACGCCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTAt            <  1:510423/149‑1 (MQ=39)                                                                                                                                             ccgTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCAACATCTAACGCCCGAGCCGGTTGCCTGATGCGCCCCTGGCGCGTCTTATCAGc        >  2:452794/3‑149 (MQ=255)                                                                                                                                                  gCCTGATGCGACGCTGGCGCGTCTTATCAGGCATACACCGCTGTGAAGTGCTCCACCCCGTAGGTTCGATAAGGCGGTTACGCCGCATCCCACATCTAACGGCCGAGCCGGTTGCCTGATGCGAGGCTGGCGCGTCTTTTCAGCCTAca   >  1:117966/1‑148 (MQ=11)                                                                                                                                                   ccTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCAACATCTAACGCCCGCGCCGGGTGCCTGATCCGACGCTCGCGCGTCTTACCAGCATACGc  >  2:470980/1‑149 (MQ=14)                                                                                                                                                   ccTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCAACATCTAACGCCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGCATACGc  <  1:288185/149‑1 (MQ=255)                                                                                                                                                   ccTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCAACATCTAACGCCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGCATACGc  <  2:591016/149‑1 (MQ=255)                                                                                                                                                   ccTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCAACATCTAACGCCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGCATACGc  <  2:603454/149‑1 (MQ=255)                                                                                                                                                   ccTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCAACATCGAACGCCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGCATACGc  <  1:479619/149‑1 (MQ=255)                                                                                                                                                     |                                                                                                                                                   GCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATAAGGCGGTTACGCCGCATCCGACATCTAACGCCCAAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCAACATCTAACGCCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGCATACGC  >  NC_000913_3_hsa_tpiA/2304778‑2305072

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.