Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	2	43,445	G→T	intergenic (–/–)	– / –	–/–

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	2	43,445	0	G	T	100.0%	230.1 / NA	66	intergenic (–/–)	–/–	–/–
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base T (32/34);  total (32/34)

TCCGTGCACGTAAAGTCGTTATCACTGCGACCCAGATGCTGGATTCCATGATCAAAAACCCACGCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAACGCCATCCTCGACGGTACTGACGCAGTGATGCTGTCTGGTGAATCCGCAAAAGGTAAATACCCGCTGGAAGCGGTTTCTATCATGGCGACCATCTGC  >  2/43347‑43540                                                                                                   |                                                                                                tCCGTGCACGTAAAGTCGTTATCACTGCGACCCAGATGCTGGATTCCATGATCAAAAACCCACGCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAACTcc                                                                                               >  2:1523124/1‑101 (MQ=255)  ccGTGCACGTAAAGTCGTTATCGCTGCTACCCAGATGCTGGATTCCATGATCAAAAACCCCCGCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCa                                                                                              <  1:461201/101‑1 (MQ=255)    gTGCACGTAAAGTCGTTATCACTGCGACCCAGATGCTGGATTCCATGATCAAAACCCCACGCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATc                                                                                            <  2:755826/101‑1 (MQ=255)    gTGCACGTAAAGTCGTTATCACTGCGACCCAGATGCTGGATTCCATGATCAAAAACCCACGCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATc                                                                                            >  1:254677/1‑101 (MQ=255)      gCACGTAAAGTCGTTATCACTGCGACCCAGATGCTGGATTCCATGATCAAAAACCCACGCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCt                                                                                          <  2:1490897/101‑1 (MQ=255)          gTAAAGTCGTTATCACTGCGACCCAGATGCTGGATTCCATGATCAAAAACCCACGCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGAc                                                                                      <  1:1157893/101‑1 (MQ=255)          gTAAAGTCGTTATCACTGCGACCCAGATGCTGGATTCCATGATCAAAAACCCACGCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGAc                                                                                      >  2:1178722/1‑101 (MQ=255)          gTAAAGTCGTTATCACTGCGACCCAGATGCTGGATTCCATGATCAAAAACCCACGCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGAc                                                                                      >  1:1340993/1‑101 (MQ=255)           tAAATTCGTTATCACTGCGACCCAGATGCTGTTTTCCATGATCAAAAACCCCCGCCCGACTCGCGAAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACg                                                                                     <  1:1541481/101‑1 (MQ=255)            aaaGTCGTTATCACTGCGACCCAGATGCTGGTTTCCATGATCTAAAACCCCCGCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACgg                                                                                    <  2:555795/101‑1 (MQ=255)            aaaGTCGTTATCACTGCGACCCAGATGCTGGATTCCATGATCAAAAACCCACGCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACgg                                                                                    >  2:590845/1‑101 (MQ=255)            aaaGTCGTTATCACTGCGACCCAGATGCTGGATTCCATGATCAAAAACCCACGCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACgg                                                                                    <  2:952302/101‑1 (MQ=255)            aaaGTCGTTATCACTGCGACCCAGATGCTGGATTCCATGATCAAAAACCCACGCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACgg                                                                                    >  2:1633992/1‑101 (MQ=255)             aaGTCGTTATCACTGCGACCCAGATGCTGGATTCCATGATCAAAAACCCACGCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACGGt                                                                                   >  2:51168/1‑101 (MQ=255)             aaGTCGTTATCACTGCGACCCAGATGCTGGATTCCATGATCAAAAACCCACGCCCGACTCGCGCAGAAGCCGGCGACGTTGCAAACTCCATCCTCGACGGt                                                                                   >  2:88596/1‑101 (MQ=255)                  gTTATCACTGCGACCCAGATGCTGGATTCCATGATCAAAAACCCACGCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACGGTACTGa                                                                              >  2:197433/1‑101 (MQ=255)                   ttATCACTGCGACCCAGATGCTGGATTCCATGATCAAAAACCCACGCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACGGTACTGAc                                                                             >  1:1226561/1‑101 (MQ=255)                        aCTGCGACCCAGATGCTGGATTCCATGATCAAAAACCCACGCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACGGTACTGACGCAGt                                                                        >  1:1309069/1‑101 (MQ=255)                          tGCGACCCAGATGCTGGATTCCATGATCAAAAACCCACGCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGa                                                                      >  2:453589/1‑101 (MQ=255)                           gCGACCCAGATGCTGGATTCCATGATCAAAAACCCACGCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGAt                                                                     <  1:562353/101‑1 (MQ=255)                           gCGACCCAGATGCTGGATTCCATGATCAAAAACCCACGCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGAt                                                                     <  2:1289825/101‑1 (MQ=255)                            cGACCCAGATGCTGGATTCCATGATCAAAAACCCACGCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGATg                                                                    >  1:800854/1‑101 (MQ=255)                              aCCCAGATGCTGGATTCCATGATCAAAAACCCACGCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGATGCt                                                                  >  2:905290/1‑101 (MQ=255)                              aCCCAGATGCTGGATTCCATGATCAAAAACCCACGCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGATGCt                                                                  <  1:1425357/101‑1 (MQ=255)                                ccAGATGCTGGATTCCATGATCAAAAACCCACGCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACGGTCCTGACGCAGTGATGCTGt                                                                <  1:1366294/101‑1 (MQ=255)                                  aGATGCTGGATTCCATGATCAAAAACCCACGCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAACTGCATCCTCGACGGTACTGACGCAGTGATGCTGTCt                                                              >  2:1152770/1‑101 (MQ=255)                                       cTGGATTCCATGATCAAAAACCCACGCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGATGCTGTCTGGTGa                                                         >  1:603528/1‑101 (MQ=255)                                         ggATTCCATGATCAAAAACCCACGCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGATGCTGTCTGGTGAAt                                                       <  1:51168/101‑1 (MQ=255)                                         ggATTCCATGATCAAAAACCCACGCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGATGCTGTCTGGTGAAt                                                       >  2:1016253/1‑101 (MQ=255)                                         ggATTCCATGATCAAAAACCCACGCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGATGCTGTCTGGTGAAt                                                       <  1:1468448/101‑1 (MQ=255)                                           aTTCCATGATCAAAACCCCGCGCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGATGCTGTCTGGTGAATcc                                                     <  2:281195/101‑1 (MQ=255)                                           aTTCCATCATCAAAAACCCACGCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGATGCTTTCTGGTGAATcc                                                     <  2:265149/101‑1 (MQ=255)                                            ttCCATGATCAAAAACCCACGCCCGACTCGCGCAGAAGCCGGTGATGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGATGCTGTCTGGTGAATCCg                                                    <  2:899824/101‑1 (MQ=255)                                            ttCCATGATCAAAAACCCACGCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGATGCTGTCTGGTGAATCCg                                                    <  1:1340745/101‑1 (MQ=255)                                               cATGATCAAAAACCCACGCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGATGCTGTCTGGTGAATCCGCaa                                                 >  2:1594972/1‑101 (MQ=255)                                                aTGATCAAAAACCCACGCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGATGCTGTCTGGTGAATCCGCaaa                                                >  1:1045673/1‑101 (MQ=255)                                                    tCAAAAACCCACGCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGATGCTGTCTGGTGAATCCGCAAAAGGt                                            >  1:401647/1‑101 (MQ=255)                                                     cAAAAACCCCCGCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAGCTCCATCCTCGACGGTACTGACGCAGTGATGCTGTCTGGTGAATCCGCAAAAGGTa                                           <  2:1401466/101‑1 (MQ=255)                                                     cAAAAACCCACGCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGATGCTGTCTGGTGAATCCGCAAAAGGTa                                           <  2:1193602/101‑1 (MQ=255)                                                      aaaaaCCCACGCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGATGCTGTCTGGTGAATCCGCAAAAGGTaa                                          <  1:280407/101‑1 (MQ=255)                                                        aaccccTCGCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGATGCTGTCTGGTGAATCCGCAAAAGGTAAAt                                        <  1:881166/98‑1 (MQ=255)                                                         accccACGCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGATGCTGTCTGGTGAATCCGCAAAAGGTAAATa                                       <  2:1226556/99‑1 (MQ=255)                                                           cccACGCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGATGCTGTCTGGTGAATCCGCAAAAGGTAAATAcc                                     <  1:29809/101‑1 (MQ=255)                                                               cGCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGATGCTGTCTGGTGAATCCGCAAAAGGTAAATTCCCGCt                                 <  1:1633998/101‑1 (MQ=255)                                                                gCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGATGCTGTCTGGTGAATCCGCAAAAGGTAAATACCCGCTg                                <  1:590850/101‑1 (MQ=255)                                                                 cccGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGATGCTGTCTGGTGAATCCGCAAAAGGTAAATACCCGCTgg                               >  1:1059713/1‑101 (MQ=255)                                                                 cccGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGATGCTGTCTGGTGAATCCGCAAAAGGTAAATACCCGCTgg                               <  2:923730/101‑1 (MQ=255)                                                                 cccGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGATGCTGTCTGGTGAATCCGCAAAAGGTAAATACCCGCTgg                               >  2:419937/1‑101 (MQ=255)                                                                 cccGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGATGCTGTCTGGTGAATCCGCAAAAGGTAAATACCCGCTgg                               >  2:32315/1‑101 (MQ=255)                                                                 cccGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACGGCACTGACGCAGGGATGCTGTCTGGTGAATCCGCAAAAGGTAAAAACCCGCTgg                               >  2:470825/1‑101 (MQ=255)                                                                   cGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGATGCTGTCTGGTGAATCCGCAAAAGGTAAATACCCGCTGGaa                             >  1:423894/1‑101 (MQ=255)                                                                   cGACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGATGCTGTCTGGTGAATCCGCAAAAGGTAAATACCCGCTGGaa                             <  2:1045668/101‑1 (MQ=255)                                                                    gACTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGATGCTGTCTGGTGAATCCGCAAAAGGTAAATACCCGCTGGAAg                            >  1:636040/1‑101 (MQ=255)                                                                     aCTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGATGCTGTCTGGTGAATCCGCAAAAGGTAAATACCCGCTGGAAGc                           >  2:1507080/1‑101 (MQ=255)                                                                     aCTCGCGCAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGATGCTGTCTGGTGAATCCGCAAAAGGTAAATACCCGCTGGAAGc                           >  2:131536/1‑101 (MQ=255)                                                                          cgcAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGATGCTGTCTGGTGAATCCGCAAAAGGTAAATACCCGCTGGAAGCGGttt                      <  1:244440/101‑1 (MQ=255)                                                                          cgcAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGATGCTGTCTGGTGAATCCGCAAAAGGTAAATACCCGCTGGAAGCGGttt                      >  1:1303441/1‑101 (MQ=255)                                                                           gcAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGATGCTGTCTGGTGAATCCGCAAAAGGTAAATACCCGCTGGAAGCGGTTTc                     >  2:426276/1‑101 (MQ=255)                                                                            cAGAAGCCGGTGACGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGATGCTGTCTGGTGAATCCGCAAAAGGTAAATACCCGCTGGAAGCGGTTTCt                    <  2:1309063/101‑1 (MQ=255)                                                                              gAAGCCGGTGACGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGATGCTGTCTGGTGAATCCGCAAAAGGTAAATACCCGCTGGAAGCGGTTTCTAt                  <  1:42704/101‑1 (MQ=255)                                                                               aaGCCGGTGACGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGATGCTGTCTGGTGAATCCGCAAAAGGTAAATACCCGCTGGAAGCGGTTTCTATc                 >  1:631574/1‑101 (MQ=255)                                                                               aaGCCGGTGACGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGATGCTGTCTGGTGAATCCGCAAAAGGTAAATACCCGCTGGAAGCGGTTTCTATc                 >  2:347625/1‑101 (MQ=255)                                                                                  ccGGTGACGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGATGCTGTCTGGTGAATCCGCAAAAGGTAAATACCCGCTGGAAGCGGTTTCTATCATg              <  1:9437/101‑1 (MQ=255)                                                                                   cGGTGACGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGATGCTGTCTGGTGAATCCGCAAAAGGTAAATACCCGCTGGAAGCGGTTTCTATCATgg             <  1:1178727/101‑1 (MQ=255)                                                                                        aCGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGATGCTGTCTGGTGAATCCGCAAAAGGTAAATACCCGCTGGAAGCGGTTTCTATCATGGCGAcc        <  2:163820/101‑1 (MQ=255)                                                                                        aCGTTGCAAACTCCATCCTCGACGGTACTGACGCAGTGATGCTGTCTGGTGAATCCGCAAAAGGTAAATACCCGCTGGAAGCGGTTTCTATCATGGCGAcc        <  1:435600/101‑1 (MQ=255)                                                                                            tGCAAACTCCATCCTCGACGGTACTGACGCAGTGATGCTGTCTGGTGAATCCGCAAAAGGTAAATACCCGCTGGAAGCGGTTTCTATCATGGCGACCATCt    >  2:580176/1‑101 (MQ=255)                                                                                              cAAACTCCATCCTCGACGGTACTGACGCAGTGATGCTGTCTGGTGAATCCGCAAAAGGTAAATACCCGCTGGAAGCGGTTTCTATCATGGCGACCATCTGc  <  1:359474/101‑1 (MQ=255)                                                                                                   |                                                                                                TCCGTGCACGTAAAGTCGTTATCACTGCGACCCAGATGCTGGATTCCATGATCAAAAACCCACGCCCGACTCGCGCAGAAGCCGGTGACGTTGCAAACGCCATCCTCGACGGTACTGACGCAGTGATGCTGTCTGGTGAATCCGCAAAAGGTAAATACCCGCTGGAAGCGGTTTCTATCATGGCGACCATCTGC  >  2/43347‑43540

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 19 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑