New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 1552149	NA (NA)	5 (0.090)	5/250	NT	NA	noncoding (20/29 nt)	other	REPv120b
	?	NC_000913	= 1552160	NA (NA)					noncoding (9/29 nt)	other	REPv120b

GCGCTGTAAAAGGCGCCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCATGAAAACCCTTCAAATCCAATAG  >  NC_000913/1552019‑1552302                                                                                                                                              |                                                                                                                                               gcgcTGGAAAAGGCGCCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCa                                                                                                                                               >  1:852237‑M2/1‑142 (MQ=255)   gcTGTAAAAGGCGCCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCatc                                                                                                                                             <  1:734710‑M2/143‑4 (MQ=255)    cTGTAAAAGGCGCCATTTTCATATTGTAGCCAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCATGACCACCCTTCCAATCCCCTAGATTGCAGTGCACGTGTAGGCCTGCTAAGCGTAGCGCgtca                                                                                                                                            <  2:804245‑M2/143‑5 (MQ=255)      gTAAACGGCGCCATTTTCATATTGTAGACAACGTAGGCTTGGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCatcagg                                                                                                                                          >  2:629540‑M2/1‑137 (MQ=255)                                 aCAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCaa                                                                                                               >  1:868802/1‑143 (MQ=32)                                  cAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCaaa                                                                                                              <  1:598644/143‑1 (MQ=33)                                                ttCATGCCGGATGCGGCGTGAACGCCTTATCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAg                                                                                                <  1:494897/143‑1 (MQ=255)                                                ttCATGCCGGATGCGGCGTGAACGCCTTATCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAg                                                                                                <  2:687892/143‑1 (MQ=255)                                                 tCAGGCAGGAGGCGGCGTGAACGCCTTATCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAgg                                                                                               <  1:636744/143‑1 (MQ=255)                                                  cATGCGGTATGCTGCGTGTACGCCTTATCCGGTATGAAAACCCGTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCAGCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGc                                                                                              <  2:982714/143‑1 (MQ=14)                                                     gCCGGATGCGGCGTGAACGCCTTATCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATGAGTACCAAATGGCGCTGTAGAAGGCgcc                                                                                           >  2:774514/1‑141 (MQ=255)                                                      ccGGATGCGGCGTGAACGCCTTATCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTCGCGCATCAGGCAACGTTGCGTTTGTCACCAGTATCAAATGACCCTGTACAAGGCATCa                                                                                          >  2:796951/1‑143 (MQ=14)                                                      ccGGATGCGGCGTGAACGCCTTATCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCa                                                                                          >  2:649424/1‑143 (MQ=255)                                                         gATGCGGCGTGAACGCCTTATCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCAttt                                                                                       <  1:1082284/143‑1 (MQ=255)                                                            ggggcgGGAGCGCGTTAGCGGGCATGCAAGCCCGTCAAAGCCAATAGATTGCAGTGAACGTGTAGGCCTGAGAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCa                                                                                    <  2:583003/141‑1 (MQ=17)                                                                cgTGAACGCCTTATCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTCAAGGGCGTCATTTTcgtctt                                                                                >  1:319432/1‑138 (MQ=255)                                                                cgTGAACGCCTTATCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCACCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATAtt                                                                                <  2:753762/143‑1 (MQ=255)                                                                  tGAACGCCTTATCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCATGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGt                                                                              <  1:660919/143‑1 (MQ=255)                                                                  tGAACGCCTTAGCCGGCATGAAAACCCTTCAAAGCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGt                                                                              <  2:1094956/143‑1 (MQ=255)                                                                     aCGCCTTATCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCatca                                                                                                                                            >  2:823370‑M2/1‑74 (MQ=255)                                                                     aCGCCTTATCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCatca                                                                                                                                            <  1:823370‑M2/78‑5 (MQ=255)                                                                             tCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGTAGACAACGTAg                                                                   <  1:714539/143‑1 (MQ=255)                                                                               cGGCATGAAAACCCTTCAAATCCAATGGATTGCAGTGAACGTGGAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGTAGACAACGTAGGc                                                                 <  1:28646/143‑1 (MQ=255)                                                                               cGGCATGAAAACCCATCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGTAGACAACGTAGGc                                                                 <  1:22835/143‑1 (MQ=255)                                                                                    tacacccccTTCAAATCCAATAGATTGCAGTAAACGTGTAGGCTCTAGAAACGGAACGCAGCAGACAATGTCGTTTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGTAGACAACGTAGGCTTTGt                                                            <  2:19268/137‑1 (MQ=21)                                                                                     gAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAACTGGCGCTGTAAAAGGCGTCATTTTCATATTGTAGACAACGTAGGCTTTGtt                                                           <  1:607886/143‑1 (MQ=255)                                                                                      aaaaCCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCCTATTGTAGTCCCCGTCGGCTTTGTTc                                                          >  1:316619/1‑143 (MQ=18)                                                                                            cgcgaaaGCCCATAGATCGCAGTGAAGGTGGAGGCCTGATAAGCTTAGGGCAGCAGGCAATGTTGCGTTTGTCATCAGGTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCg                                                    <  2:55832/139‑1 (MQ=25)                                                                                              tCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGTAGACCACGTAGGCTTTGTTCATGCCGGa                                                  >  1:534010/1‑143 (MQ=255)                                                                                                    ccAATAGATGGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCGGATgcggc                                            <  1:438603/143‑1 (MQ=255)                                                                                                     cAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGTACACAACGTAGGCTTTGTTCATGCCGGATgcggcg                                           <  1:870596/143‑1 (MQ=255)                                                                                                     cAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCA‑TTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCGGATCCGGCGt                                          >  1:1060524/1‑143 (MQ=255)                                                                                                       aTAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCatcaggcctacacgttcactgcaatctattggatttgaagggtttaatgccggataaggcgtttgggtgccatccgtcatgaaccaaggctacggtgtctacc                                         <  2:486419‑M2/143‑104 (MQ=255)                                                                                                         aGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGTAGACAACGTAGGCTTTGTTCACGCCGCATCCGGCATGaa                                       <  1:609505/143‑1 (MQ=25)                                                                                                          gATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCGCATccggcat                                          >  1:905239/1‑137 (MQ=255)                                                                                                          gATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCGCATccggcat                                          <  2:905239/139‑3 (MQ=255)                                                                                                           agggCAGTGAACGAGTAGGCCTGAGAAGCGTAGGGCAGCAGGCAATGTTGCGTTAGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACg                                     <  2:327624/140‑1 (MQ=21)                                                                                                                  tGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCAGGATGCGGCGTGAACGCCTTATc                              >  1:219193/1‑143 (MQ=255)                                                                                                                    aaCGTGTAGGCCTGATAGGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCg                            <  1:789681/143‑1 (MQ=255)                                                                                                                    aaCGTGTAGGCCTGATAAGCGTAGCGCatcaggcctacacgttcactgcaatctattggatttgaagggttttcatgccggataaggcgttcacgccgcatccggcatgaacaaagcctacgttgtctacaatatgcacatga                            <  2:605864‑M2/143‑117 (MQ=255)                                                                                                                       gtgtGGGCGTGGTAGGGGTAGGGCGTCAGCGAAGGTGGCGTTTGTCTTGAGCTTCAAATGGCGCTGTACAAGGCGTCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCa                         <  2:261320/143‑1 (MQ=14)                                                                                                                       gtgtAGGCCTGATAAGCGTAGCGCatcaggccgacacgttcactgcaatctattggatttgaagggttttcatgccggataaggcgttcacgccgcatccggcatgaacaaagcctacgttgtctacaatatgaaaatggcgc                         <  2:578967‑M2/143‑120 (MQ=255)                                                                                                                       gtgtAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCa                         <  1:649424/143‑1 (MQ=255)                                                                                                                         gtAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGTAGACAAGGTAGGCTTTGTTCATGCCGGAGTCGGCGTGAACGGCTTATGCGGCATg                       >  2:591092/1‑143 (MQ=25)                                                                                                                             gCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCATGaaca                   >  1:12521/1‑141 (MQ=255)                                                                                                                              ccTGATAAGCGTAGCGCatcaggcctacacgttcactgcaatctattggatttgaagggttttcatgccggataaggcgttcacg                                                                            <  1:840892‑M2/85‑69 (MQ=255)                                                                                                                              ccTGATAAGCGTAGCGCatcaggcctacacgttcactgcaatctattggatttgaagggttttcatgccggataaggcgttcacg                                                                            >  2:840892‑M2/1‑17 (MQ=255)                                                                                                                               cTGAGAAGCGTGGCGCATCAGGCAATGTCGCGTTTGGCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCATGAAAAcc                 <  1:27253/143‑1 (MQ=255)                                                                                                                               cTGAGAAGCGTAGCGCAGCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCATGAAAAcc                 <  1:769363/143‑1 (MQ=255)                                                                                                                                tGATAGGCGGAGCGCATCAGGCAATGTTGCGTTCGTCATCAGTTTCAAATGGCGCTGTACAAGGCGTCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCATGAAAAccc                <  1:1013406/143‑1 (MQ=255)                                                                                                                                tGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCATGAAAAccc                <  1:1013407/143‑1 (MQ=255)                                                                                                                                tGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCATGAAAAccc                <  1:1013403/143‑1 (MQ=255)                                                                                                                                           gcgcATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCGTATTGTAGACAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCCGCATGAAAACCCTtccaatccaa     >  2:146106/1‑143 (MQ=255)                                                                                                                                            cgcATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTGAAAACCCTTCAAATCCaac    >  1:153874/1‑142 (MQ=255)                                                                                                                                              cATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCGGATGCGGCGGGAACGCCTTATCCGGCATGAAAACCCTTCAAATCCAATAg  >  1:1095773/1‑143 (MQ=255)                                                                                                                                              |                                                                                                                                               GCGCTGTAAAAGGCGCCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCATGAAAACCCTTCAAATCCAATAG  >  NC_000913/1552019‑1552302

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.