New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_hsa_tpiA	= 1434748	2 (0.040)	48 (0.970)	41/282	0.3	96.0%	intergenic (‑524/+210)	ynaE/ttcC	cold shock protein, Rac prophage/pseudogene, prophage Rac integration site ttcA duplication;Phage or Prophage Related
	?	NC_000913_3_hsa_tpiA	1467910 =	NA (NA)					intergenic (+6/+11)	ydbA/insD1	pseudogene, autotransporter homolog; interrupted by IS2 and IS30/IS2 transposase TnpB

AATGGAGATACGACAATCAGCGGAGAATTCCCTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTGCAAGGTT  >  NC_000913_3_hsa_tpiA/1467762‑1468052                                                                                                                                                     |                                                                                                                                               aaTGGAGATACGACAATCAGCGGAGAATTCCCTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCt                                                                                                                                                >  1:482036/1‑149 (MQ=255)        aTACGACAATCAGCGGAGAATTCCCTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTg                                                                                                                                         >  2:25840/1‑149 (MQ=255)        aTACGACAATCAGCGGAGAATTCCCTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTg                                                                                                                                         >  2:28090/1‑149 (MQ=255)         tACGACAATCAGCGGAGAATTCCCTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGc                                                                                                                                        <  1:28090/149‑1 (MQ=255)         tACGACAATCAGCGGAGAATTCCCTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGc                                                                                                                                        <  1:25840/149‑1 (MQ=255)           cGACAATCAGCGGAGAATTCCCTCTGGGGTTTGCCGCGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAATGGCGCTACGCTAACAATGCAGGATATTGACAGGTTTGAACATCATGGGACAAGAACCCTGGATTTGccc                                                                                                                                      <  1:631871/149‑1 (MQ=255)               aataaccGGCGAATTCCCTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCtat                                                                                                                                  >  2:369526/7‑149 (MQ=255)               aaTCAGCGGAGAATTCCCTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGCCAAGAACGCTGGATTTGCCCCtat                                                                                                                                  >  2:813532/1‑149 (MQ=255)                              cccTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTg                                                                                                                   >  2:280226/1‑149 (MQ=255)                              cccTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGAAATCTg                                                                                                                   >  2:280141/1‑149 (MQ=255)                                ctctGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGtt                                                                                                                 >  1:778541/1‑149 (MQ=255)                                   tGGGGTTTGCCGGGGTTATTCGGGTACAGGATCACGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATc                                                                                                              <  1:676256/149‑1 (MQ=255)                                    ggggTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCa                                                                                                             <  2:482036/149‑1 (MQ=255)                                    ggggTTTGCCGGCGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGACATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCa                                                                                                             <  1:167073/149‑1 (MQ=255)                                     gggTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCAc                                                                                                            <  1:129847/149‑1 (MQ=255)                                       gTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACtt                                                                                                          >  2:447148/1‑149 (MQ=255)                                          tGCGGGGGGTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTGATCACTTAAc                                                                                                       <  2:173907/149‑1 (MQ=255)                                             cGGGGTTGTTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCa                                                                                                             <  1:131916/140‑1 (MQ=255)                                             cGGGGTTGTTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCa                                                                                                             >  2:131916/1‑140 (MQ=255)                                                  ttATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACa                                                                                               >  1:302819/1‑149 (MQ=255)                                                    aTTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAg                                                                                             >  1:542078/1‑149 (MQ=255)                                                     ttCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGc                                                                                            >  1:525119/1‑149 (MQ=255)                                                           gaCAGGATAAAGCTTTGCTGGAACTTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAATATCATGGGACAAGTACCGTGGATTTGCCCCTATATTTCCGGACATCTGTTATCACTTAACACATTACAAGCCCGCTg                                                                                      >  2:802897/2‑149 (MQ=37)                                                            aCAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTg                                                                                                                                               <  2:555545/91‑1 (MQ=255)                                                            aCAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTg                                                                                                                                               >  1:555545/1‑91 (MQ=255)                                                             cAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGc                                                                                            >  2:359778/1‑141 (MQ=255)                                                             cAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGc                                                                                            <  1:359778/141‑1 (MQ=255)                                                              aGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGATTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGcct                                                                                   >  1:11764/1‑148 (MQ=255)                                                                gATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCa                                                                                 >  1:263366/1‑149 (MQ=255)                                                                     aGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTCTGACGTAACCCATTACAAGCCCGCTGCCGCAGatat                                                                            <  2:840498/149‑1 (MQ=255)                                                                     aGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGatat                                                                            >  2:262933/1‑149 (MQ=255)                                                                       cTTTTCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTc                                                                          <  1:528277/149‑1 (MQ=255)                                                                        cttGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTcc                                                                         <  1:167860/148‑1 (MQ=255)                                                                         ttGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTccc                                                                        <  1:369526/149‑1 (MQ=255)                                                                           gCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGt                                                                      <  1:43822/149‑1 (MQ=255)                                                                                   ttGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACaa                                                                                              <  2:203255/117‑1 (MQ=255)                                                                                   ttGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACaa                                                                                              >  1:203255/1‑117 (MQ=255)                                                                                   ttGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTGAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGgcgagcg                                                              >  1:504102/1‑149 (MQ=255)                                                                                          tGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACaa                                                                                              <  2:511218/110‑1 (MQ=255)                                                                                          tGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACaa                                                                                              >  1:511218/1‑110 (MQ=255)                                                                                            gcgcTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATAttt                                                                                                                              >  1:342043/1‑76 (MQ=255)                                                                                            gcgcTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATAttt                                                                                                                              <  2:342043/76‑1 (MQ=255)                                                                                              gctacgctaACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAgcg                                                   >  2:613354/1‑149 (MQ=255)                                                                                              gctacgctaACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAgcg                                                   >  2:288219/1‑149 (MQ=255)                                                                                                    ctaACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTccc                                                                        <  1:716831/122‑1 (MQ=255)                                                                                                    ctaACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTccc                                                                        >  2:716831/1‑122 (MQ=255)                                                                                                     taACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATg                                            >  1:840774/1‑149 (MQ=255)                                                                                                      aaCAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGc                                           <  2:302819/149‑1 (MQ=255)                                                                                                           tGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATg                                      <  1:447148/149‑1 (MQ=255)                                                                                                             cAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGGTTTGCCCCTATAGTTCCAGACATCTGTTATCACTTAACCCATTACAAACCCGCTGCCGCAGATATTCCCGTGGCGCGCGATAACGCAGGCCCCTATGCGGAGGcg                                    >  2:229637/1‑148 (MQ=18)                                                                                                                gATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAANCNANCNCNCTAACCGGAGGCCAtt                                 >  1:582545/1‑149 (MQ=255)                                                                                                                   atTGACAGTTTTGAACATCATGGGACAAGAACCCTGTATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGt                              <  1:85762/149‑1 (MQ=255)                                                                                                                     tGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCa                                                                                                    <  1:493741/77‑1 (MQ=255)                                                                                                                     tGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCa                                                                                                    >  2:493741/1‑77 (MQ=255)                                                                                                                       aCAGTTTTGAACTTCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTtata                          <  1:87176/149‑1 (MQ=255)                                                                                                                                aaCGTCAGGGGACAAGAACCTTGGATCTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACATGGCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAGCCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGaa                 <  2:11764/149‑1 (MQ=11)                                                                                                                                aaCATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAAACTACTAGAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGaa                 >  1:602250/1‑149 (MQ=255)                                                                                                                                   atcatGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCCTTATAATGCTCGAgcgc              >  2:212283/1‑149 (MQ=255)                                                                                                                                         ggACAAGAACCCTGGATTTGCCCCTCTCTCTGCGAACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCACAGATATTCCCGTGGCGAGCGATAACCCAGCGCCCTATCCGGATGCCATTCGTTATAATGCTACCACGCCTCTGc        >  2:408271/1‑149 (MQ=11)                                                                                                                                             aaGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTGCAAgg    <  1:523373/149‑1 (MQ=25)                                                                                                                                               gAACCCTTGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTGCAAGGtt  <  1:100150/149‑1 (MQ=18)                                                                                                                                                     |                                                                                                                                               AATGGAGATACGACAATCAGCGGAGAATTCCCTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTGCAAGGTT  >  NC_000913_3_hsa_tpiA/1467762‑1468052

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.