Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	2	55,769	G→A	intergenic (–/–)	– / –	–/–

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	2	55,769	0	G	A	100.0%	240.2 / NA	68	intergenic (–/–)	–/–	–/–
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (32/36);  total (32/36)

AGGAGCTTACAATAGTAAGTGACTGGGGTGAACGAACGTAGCCGCAGCACATGCAACTTGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTTGTTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATCGGCCTGTTAAAAACCGCTGAAATTGCTCATCATTATGCAGGTGAGTTT  >  2/55671‑55866                                                                                                   |                                                                                                  aGGAGCTTACAATAGTAAGTGACTGGGGTGAACGAACGTAGCCGCAGCACATGCAACTTGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAgttatt                                                                                                 <  1:1513953/101‑1 (MQ=255) aGGAGCTTACAATAGTAAGTGACTGGGGAGAACGAACGTAGCCGCAGCACATGCAACTTGAAATACGCCGAGTAAATCGTTTGCGTGTTGCCTGAgttatt                                                                                                 >  2:1698456/1‑101 (MQ=255)   gAGCTTACAATAGTAAGTGACTGGGGTGAACGAACGTAGCCGCAGCACATGCAACTTGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTtattgt                                                                                               >  2:764444/1‑101 (MQ=255)   gAGCTTACAATAGTAAGTGACTGGGGTGAACGAACGTAGCCGCAGCACATGCAACTTGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTtattgt                                                                                               <  2:254422/101‑1 (MQ=255)          cAATAGTAAGTGACTGGGGTGAACGAACGTAGCCGCAGCACATGCAACTTGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACAt                                                                                        >  2:783382/1‑101 (MQ=255)          aaaTAGTAAGTGACTGGGGTGAACAAACGTAGCCGCAGCACATGCAACTTGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACAt                                                                                        <  1:265650/100‑1 (MQ=255)              aGTAAGTGACTGGGGTGAACGAACGTAGCCGCAGCACATGCAACTTGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACAttttt                                                                                    <  1:259897/101‑1 (MQ=255)              aGTAAGTGACTGGGGTGAACGAACGTAGCCGCAGCACATGCAACTTGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACAttttt                                                                                    >  1:1550688/1‑101 (MQ=255)                tAAGTGACTGGGGTGAACGAACGTAGCCGCAGCACATGCAACTTGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACAttttttt                                                                                  <  2:538757/101‑1 (MQ=255)                tAAGTGACTGGGGTGAACGAACGTAGCCGCAGCACATGCAACTTGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACAttttttt                                                                                  <  1:860571/101‑1 (MQ=255)                  aGTGACTGGGGTGAACGAACGTAGCCGCAGCACATGCAACTTGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCt                                                                                <  2:1341566/101‑1 (MQ=255)                   gTGACTGGGGTGAACGAACGTAGCCGCAGCACATGCAACTTGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTa                                                                               <  1:558362/101‑1 (MQ=255)                   gTGACTGGGGTGAACGAACGTAGCCGCAGCACATGCAACTTGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTa                                                                               <  2:358849/101‑1 (MQ=255)                    tGACTGGGGTGAACGAACGTAGCCGCAGCACATGCAACTTGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTaa                                                                              >  1:957622/1‑101 (MQ=255)                      aCTGGGGTGAACGAACGTAGCCGCAGCACATGCAACTTGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAaca                                                                            <  1:304532/101‑1 (MQ=255)                      aCTGGGGTGAACGAACGTAGCCGCAGCACATGCAACTTGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAaca                                                                            <  2:1158199/101‑1 (MQ=255)                       cTGGGGTGAACGAACGTAGCCGCAGCACATGCAACTTGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAacac                                                                           <  1:1130001/101‑1 (MQ=255)                        tGGGGTGAACGAACGTAGCCGCAGCACATGCAACTTGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAACACg                                                                          >  1:1305768/1‑101 (MQ=255)                            gTGAACGAACGTAGCCGCAGCACATGCAACTTGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCa                                                                      >  2:909711/1‑101 (MQ=255)                                 cgaacgTAGCCGCAGCACATGCAACTTGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGa                                                                 >  2:1544345/1‑101 (MQ=255)                                   aacgTAGCCGCAGCACATGCAACTTGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAAt                                                               >  1:777506/1‑101 (MQ=255)                                   aacgTAGCCGCAGCACATGCAACTTGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAAt                                                               <  1:80101/101‑1 (MQ=255)                                     cgTAGCCGCAGCACATGCAACTTGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTa                                                             >  2:1551363/1‑101 (MQ=255)                                       tAGCCGCAGCACATGCAACTTGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAg                                                           <  1:783387/101‑1 (MQ=255)                                       tAGCCGCAGCACATGCAACTTGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAg                                                           <  2:521638/101‑1 (MQ=255)                                         gCCGCAGCACATGCAACTTGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAggg                                                         <  2:686417/101‑1 (MQ=255)                                          ccGCAGCACATGCAACTTGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGc                                                        <  1:852700/101‑1 (MQ=255)                                           cGCAGCACATGCAACTTGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCCCATTTTTTTCTAACACGCCCATCAGAATTAAGGGCa                                                       >  1:1377267/1‑101 (MQ=255)                                           cGCAGCACATGCAACTTGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCa                                                       <  1:764449/101‑1 (MQ=255)                                            gcagcaCATGCAACTTGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAg                                                      >  2:587454/1‑101 (MQ=255)                                             cagcaCATGCAACTTGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGa                                                     <  1:385012/101‑1 (MQ=255)                                             cagcaCATGCAACTTGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGa                                                     >  1:1641280/1‑101 (MQ=255)                                             cagcaCATGCAACTTGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGa                                                     >  1:898874/1‑101 (MQ=255)                                              agcaCATGCAACTTGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGaa                                                    >  2:213840/1‑101 (MQ=255)                                                cacaTGCAACTTGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATc                                                  <  2:1030446/101‑1 (MQ=255)                                                 acaTGCAACTTGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATCg                                                 <  1:693468/101‑1 (MQ=255)                                                 acaTGCAACTTGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATCg                                                 >  2:399499/1‑101 (MQ=255)                                                     gCAACTTGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATCGGCCt                                             >  2:874505/1‑101 (MQ=255)                                                        aCTTGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATCGGCCTGtt                                          <  2:1304733/101‑1 (MQ=255)                                                         cTTGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATCGGCCTGTTa                                         >  1:302454/1‑101 (MQ=255)                                                         cTTGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATCGGCCTGTTa                                         >  1:256370/1‑101 (MQ=255)                                                         cTTGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATCGGCCTGTTa                                         >  2:1558808/1‑101 (MQ=255)                                                           tGAAATCCGACGAGTAAACCATTTGCGTGTTTCCTGAGTTATTGTACCACATTTTTTCCTAAAACGCCCATCAGAATTAAGGGCAGAATCGGCCTGTTaaa                                       <  2:1304520/101‑1 (MQ=255)                                                           tGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATCGGCCTGTTaaa                                       >  2:898394/1‑101 (MQ=255)                                                               aTACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATCGGCCTGTTAAAAAcc                                   <  2:1399678/101‑1 (MQ=255)                                                               aTACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATCGGCCTGTTAAAAAcc                                   <  2:1374578/101‑1 (MQ=255)                                                                 acgacgAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATCGGCCTGTTAAAAACCGc                                 >  2:565057/1‑101 (MQ=255)                                                                 acgacgAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATCGGCCTGTTAAAAACCGc                                 <  1:783826/101‑1 (MQ=255)                                                                 acgacgAGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCAAATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATCGGCCTGTTAAAAACCGc                                 >  2:814974/1‑101 (MQ=255)                                                                   gacgaGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATCGGCCTGTTAAAAACCGCTg                               <  2:1066503/101‑1 (MQ=255)                                                                     cgaGTAAATCTTTTGTGTGGTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATCGGCCTGTTAAAAACCGCTGaa                             <  2:682320/101‑1 (MQ=255)                                                                     cgaGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATCGGCCTGTTAAAAACCGCTGaa                             <  2:1076290/101‑1 (MQ=255)                                                                     cgaGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATCGGCCTGTTAAAAACCGCTGaa                             <  2:1180762/101‑1 (MQ=255)                                                                       aGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATCGGCCTGTTAAAAACCGCTGAAAt                           >  2:572324/1‑101 (MQ=255)                                                                       aGTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATCGGCCTGTTAAAAACCGCTGAAAt                           <  2:1550682/101‑1 (MQ=255)                                                                        gTAAATCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATCGGCCTGTTAAAAACCGCTGAAAtt                          >  1:1468561/1‑101 (MQ=255)                                                                          aaaTCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATCGGCCTGTTAAAAACCGCTGAAATTGc                        >  1:1538252/1‑101 (MQ=255)                                                                          aaaTCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATCGGCCTGTTAAAAACCGCTGAAATTGc                        >  2:667468/1‑101 (MQ=255)                                                                            aTCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATCGGCCTGTTAAAAACCGCTGAAATTGCtc                      >  1:1232373/1‑101 (MQ=255)                                                                            aTCGTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATCGGCCTGTTAAAAACCGCTGAAATTGCtc                      >  1:556593/1‑101 (MQ=255)                                                                               gTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATCGGCCTGTTAAAAACCGCTGAAATTGCtcatc                   <  2:302454/101‑1 (MQ=255)                                                                               gTTTGCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATCGGCCTGTTAAAAACCGCTGAAATTGCtcatc                   <  1:419029/101‑1 (MQ=255)                                                                                   gCGTGTTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATCGGCCTGTTAAAAACCGCTGAAATTGCTCATCATTa               <  2:1648793/101‑1 (MQ=255)                                                                                     gtgtTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATCGGCCTGTTAAAAACCGCTGAAATTGCTCATCATTATg             >  1:775584/1‑101 (MQ=255)                                                                                       gtTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATCGGCCTGTTAAAAACCGCTGAAATTGCTCATCATTATGCa           >  1:1297739/1‑101 (MQ=255)                                                                                       gtTGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATCGGCCTGTTAAAAACCGCTGAAATTGCTCATCATTATGCa           <  1:1665888/101‑1 (MQ=255)                                                                                         tGCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATCGGCCTGTTAAAAACCGCTGAAATTGCTCATCATTATGCAgg         <  2:214966/101‑1 (MQ=255)                                                                                          gCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATCGGCCTGTTAAAAACCGCTGAAATTGCTCATCATTATGCAGGt        <  2:914993/101‑1 (MQ=255)                                                                                          gCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATCGGCCTGTTAAAAACCGCTGAAATTGCTCATCATTATGCAGGt        <  1:572329/101‑1 (MQ=255)                                                                                          gCCTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATCGGCCTGTTAAAAACCGCTGAAATTGCTCATCATTATGCAGGt        <  2:933702/101‑1 (MQ=255)                                                                                           ccTGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATCGGCCTGTTAAAAACCGCTGAAATTGCTCATCATTATGCAGGTg       >  1:1387003/1‑101 (MQ=255)                                                                                             tGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATCGGCCTGTTAAAAACCGCTGAAATTGCTCATCATTATGCAGGTGAg     >  1:40404/1‑101 (MQ=255)                                                                                             tGAGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATCGGCCTGTTAAAAACCGCTGAAATTGCTCATCATTATGCAGGTGAg     <  2:256370/101‑1 (MQ=255)                                                                                               aGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATCGGCCTGTTAAAAACCGCTGAAATTGCTCATCATTATGCAGGTGAGtt   >  1:554479/1‑101 (MQ=255)                                                                                               aGTTATTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATCGGCCTGTTAAAAACCGCTGAAATTGCTCATCATTATGCAGGTGAGtt   >  2:107685/1‑101 (MQ=255)                                                                                                gttattGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATCGGCCTGTTAAAAACCGCTGAAATTGCTCATCATTATGCAGGTGAGttt  >  2:1256476/1‑101 (MQ=255)                                                                                                gttattGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATCGGCCTGTTAAAAACCGCTGAAATTGCTCATCATTATGCAGGTGAGttt  <  1:357531/101‑1 (MQ=255)                                                                                                   |                                                                                                  AGGAGCTTACAATAGTAAGTGACTGGGGTGAACGAACGTAGCCGCAGCACATGCAACTTGAAATACGACGAGTAAATCGTTTGCGTGTTGCCTGAGTTGTTGTACCACATTTTTTTCTAACACGCCCATCAGAATTAAGGGCAGAATCGGCCTGTTAAAAACCGCTGAAATTGCTCATCATTATGCAGGTGAGTTT  >  2/55671‑55866

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑