Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	178	288	C→A	intergenic (–/–)	– / –	–/–

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	178	288	0	C	A	100.0%	164.4 / NA	48	intergenic (–/–)	–/–	–/–
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base A (22/26);  total (22/26)

ATGTCGCCATGGACCGTGTTGAAGGAGCTGCGCTGGAGTTTTATGAGGCAGCAGCCAGAAGGAGCATCAGACAGGTCTTCCTGGATGTTGCTGCCGGGTTATGTGAAGGGGATGAGCAGTCGCCGGAAAAGCGCCCCATAATTTTAGAGGCGCAGAATGTGTGGATAACCTACAAAGGAAAGCTACCGGGAA  >  178/194‑385                                                                                               |                                                                                                  acatctcgctGGACCGTGTTGAAGGTGCCGCGCTGGAGTTTTATGAGGCAGCAGCCAGAAGGAGCATCAGCCAGGTCTTCCTGGATGTTGCTGCAGGGTTa                                                                                             <  1:1645019/92‑1 (MQ=21) acatctcgctGGACCGTGTTGAAGGTGCCGCGCTGGAGTTTTATGAGGCAGCAGCCAGAAGGAGCATCAGACAGGTCTTCCTGGATGTTGCTGCAGGGTTa                                                                                             <  1:295984/92‑1 (MQ=25)  catctcgctGGACCGTGTTGAAGGTGCCGCGCTGGAGTTTTATGAGGCAGCAGCCAGAAGGAGCATCAGACAGGTCTTCCTGGATGTTGCTGCAGGGTTAt                                                                                            <  1:1196685/93‑1 (MQ=25)          tGGACCGTGTTGAAGGTGCCGCGCTGGAGTTTTATGAGGCAGCAGCCAGAAGGAGCATCAGACAGGTCTTCCTGGATGTTGCTGCAGGGTTATGTGAAggg                                                                                    <  2:662657/101‑1 (MQ=255)          tGGACCGTGTTGAAGGTGCCGCGCTGGAGTTTTATGAGGCAGCAGCCAGAAGGAGCATCAGACAGGTCTTCCTGGATGTTGCTGCAGGGTTATGTGAAggg                                                                                    >  1:611117/1‑101 (MQ=255)           ggACCGTGTTGAAGGTGCCGCGCTGGAGTTTTATGAGGCAGCAGCCAGAAGGAGCATCAGACAGGTCTTCCTGGATGTTGCTGCAGGGTTATGTGAAgggg                                                                                   <  1:930283/101‑1 (MQ=255)               cGTGTTGAAGGTGCCGCGCTGGAGTTTTATGAGGCAGCAGCCAGAAGGAGCATCAGACAGGTCTTCCTGGATGTTGCTGCAGGGTTATGTGAAGGGGATGa                                                                               >  1:723248/1‑101 (MQ=255)                gtgtTGAAGGTGCCGCGCTGGAGTTTTATGAGGCAGCAGCCAGAAGGAGCATCAGACAGGTCTTCCTGGATGTTGCTGCAGGGTTATGTGAAGGGGATGAg                                                                              >  1:819824/1‑101 (MQ=255)                 tgtTGAAGGTGCCGCGCTGGAGTTTTATGAGGCAGCAGCCAGAAGGAGCATCAGACAGGTCTTCCTGGATGTTGCTGCAGGGTTATGTGAAGGGGATGAGc                                                                             >  2:1237062/1‑101 (MQ=255)                 tgtTGAAGGTGCCGCGCTGGAGTTTTATGAGGCAGCAGCCAGAAGGAGCATCAGACAGGTCTTCCTGGATGTTGCTGCAGGGTTATGTGAAGGGGATGAGc                                                                             >  1:1475092/1‑101 (MQ=255)                  gtTGAAGGTGCCGCGCTGGAGTTTTATGAGGCAGCAGCCAGAAGGAGCATCAGACAGGTCTTCCTGGATGTTGCTGCAGGGTTATGTGAAGGGGATGAGCa                                                                            <  2:1406580/101‑1 (MQ=255)                     gAAGGTGCCGCGCTGGAGTTTTATGAGGCAGCAGCCAGAAGGAGCATCAGACAGGTCTTCCTGGATGTTGCTGCAGGGTTATGTGAAGGGGATGAGCAGTc                                                                         >  1:104271/1‑101 (MQ=255)                       aGGTGCCGCGCTGGAGTTTTATGAGGCAGCAGCCAGAAGGAGCATCAGACAGGTCTTCCTGGATGTTGCTGCAGGGTTATGTGAAGGGGGTGAGCAGttac                                                                       >  2:1663142/1‑98 (MQ=255)                        ggtgccgcgcTGGAGTTTTATGAGGCAGCAGCCAGAAGGAGCATCAGACAGGTCTTCCTGGATGTTGCTGCAGGGTTATGTGAAGGGGATGAGCAGTCAcc                                                                      >  1:419451/7‑101 (MQ=255)                         gtgccgcgcTGGAGTTTTATGAGGCAGCAGCCAGAAGGAGCATCAGACAGGTCTTCCTGGATGTTGCTGCAGGGTTATGTGAAGGGGATGAGCAGTCACCg                                                                     <  1:9039/96‑1 (MQ=255)                               cgcTGGAGTTTTATGAGGCAGCAGCCAGAAGGAGCATCAGACAGGTCTTCCTGGATGTTGCTGCAGGGTTATGTGAAGGGGATGAGCAGTCACCGGAAAAg                                                               >  1:1678371/1‑101 (MQ=255)                                gcTGGAGTTTTATGAGGCGGCAGCCAGAAGGAGCATCAGACAGGTCTTCCTGGATGTTGCTGCAGGGTTATGTGAAGGGGATGAGCAGTCACCGGAAAAgc                                                              >  1:1532311/1‑101 (MQ=255)                                gcTGGAGTTTTATGAGGCAGCAGCCAGAAGGAGCATCAGACAGGTCTTCCTGGATGTTGCTGCAGGGTTATGTGAAGGGGATGAGCAGTCACCGGAAAAgc                                                              >  1:1654066/1‑101 (MQ=255)                                   ggAGTTTTATGAGGCAGCAGCCAGAAGGAGCATCAGACAGGTCTTCCTGGATGTTGCTGCAGGGTTATGTGAAGGGGATGAGCAGTCACCGGAAAAGCGcc                                                           >  1:181968/1‑101 (MQ=255)                                     aGTTTTATGAGGCAGCAGCCAGAAGGAGCATCAGACAGGTCTTCCTGGATGTTGCTGCAGGGTTATGTGAAGGGGATGAGCAGTCACCGGAAAAGCGcccc                                                         >  1:463714/1‑101 (MQ=255)                                      gTTTTATGAGGCAGCAGCCAGAAGGAGCATCAGACAGGTCTTCCTGGATGTTGCTGCAGGGTTATGTGAAGGGGATGAGCAGTCACCGGAAAAGCGCCCCa                                                        >  2:487994/1‑101 (MQ=255)                                           aTGAGGCAGCAGCCAGAAGGAGCATCAGACAGGTCTTCCTGGATGTTGCTGCAGGGTTATGTGAAGGGGATGAGCAGTCACCGGAAAAGCGCCCCATAAtt                                                   <  2:665571/101‑1 (MQ=255)                                              aGGCAGCAGCCAGAAGGAGCATCAGACAGGTCTTCCTGGATGTTGCTGCAGGGTTATGTGAAGGGGATGAGCAGTCACCGGAAAAGCGCCCCATAATTTTa                                                <  1:767069/101‑1 (MQ=255)                                                gcagcaGCCAGAAGGAGCATCAGACAGGTCTTCCTGGATGTTGCTGCAGGGTTATGTGAAGGGGATGAGCAGTCACCGGAAAAGCGCCCCATAATTTTaga                                              <  2:611112/101‑1 (MQ=255)                                                gcagcaGCCAGAAGGAGCATCAGACAGGTCTTCCTGGATGTTGCTGCAGGGTTATGTGAAGGGGATGAGCAGTCACCGGAAAAGCGCCCCATAATTTTaga                                              <  1:441682/101‑1 (MQ=255)                                                 cagcagCCAGAAGGAGCATCAGACAGGTCTTCCTGGATGTTGCTGCAGGGTTATGTGAAGGGGATGAGCAGTCACCGGAAAAGCGCCCCATAATTTTagag                                             <  1:186483/101‑1 (MQ=255)                                                         aGAAGGAGCATCAGACAGGTCTTCCTGGATGTTGCTGCAGGGTTATGTGAAGGGGATGAGCAGTCACCGGAAAAGCGCCCCATAATTTTAGAGGCGCAggg                                     >  2:1641050/1‑99 (MQ=255)                                                         aGAAGGAGCATCAGACAGGTCTTCCTGGATGTTGCTGCAGGGTTATGTGAAGGGGATGAGCAGTCACCGGAAAAGCGCCCCATAATTTTAGAGGCGCAggg                                     >  2:910304/1‑99 (MQ=255)                                                              gAGCATCAGACAGGTCTTCCTGGATGTTGCTGTAGGGTTATGTGAAGGGTATGAGCAGTCACCGGAAAAGCGTCCCATAATTTTAGAGGGGCAGGgtgtgt                                <  2:826393/101‑1 (MQ=255)                                                              gAGCATCAGACAGGTCTTCCTGGATGTTGCTGCAGGGTTATGTGAAGGGGATGAGCAGTCACCGGAAAAGCGCCCCATAATTTTAGAGGCGCAGGgtgtgt                                <  2:160671/101‑1 (MQ=255)                                                                 cATCAGACAGGTCTTCCTGGATGTTGCTGCAGGGTTATGTGAAGGGGATGAGCAGTCACCGGAAAAGCGCCCCATAATTTTAGAGGCGCAGGGTGTGTGGa                             >  1:938806/1‑101 (MQ=255)                                                                  aTCAGACAGGTCTTCCTGGATGTTGCTGCAGGGTTATGTGAAGGGGATGAGCAGTCACCGGAAAAGCGCCCCATAATTTTAGAGGCGCAGGGTGTGTGGAt                            <  1:1516891/101‑1 (MQ=255)                                                                  aTCAGACAGGTCTTCCTGGATGTTGCTGCAGGGTTATGTGAAGGGGATGAGCAGTCACCGGAAAAGCGCCCCATAATTTTAGAGGCGCAGGGTGTGTGGAt                            <  1:1207472/101‑1 (MQ=255)                                                                   tCAGACAGGTCTTCCTGGATGTTGCTGCAGGGTTATGTGAAGGGGATGAGCAGTCACCGGAAAAGCGCCCCATAATTTTAGAGGCGCAGGGTGTGTGGATa                           <  2:955377/101‑1 (MQ=255)                                                                    cAGACAGGTCTTCCTGGATGTTGCTGCAGGGTTATGTGAAGGGGATGAGCAGTCACCGGAAAAGCGCCCCATAATTTTAGAGGCGCAGGGTGTGTGGATaa                          <  1:448671/101‑1 (MQ=255)                                                                     cagtaattCTTCCTGGATGTTGCTGCAGGGTTATGTGAAGGGGATGAGCAGTCACCGGAAAAGCGCCCCATAATTTTAGAGGCGCAGGGTGTGTGGATAAc                         >  2:1457515/8‑101 (MQ=255)                                                                     aGACAGGTCTTCCTGGATGTTGCTGCAGGGTTATGTGAAGGGGATGAGCAGTCACCGGAAAAGCGCCCCATAATTTTAGAGGCGCAGGGTGTGTGGATAAc                         >  2:640976/1‑101 (MQ=255)                                                                      gACAGGTCTTCCTGGATGTTGCTGCAGGGTTATGTGAAGGGGATGAGCAGTCACCGGAAAAGCGCCCCATAATTTTAGAGGCGCAGGGTGTGTGGATAAcc                        <  1:1390743/101‑1 (MQ=255)                                                                         aGGTCTTCCTGGATGTTGCTGCAGGGTTATGTGAAGGGGATGAGCAGTCACCGGAAAAGCGCCCCATAATTTTAGAGGCGCAGGGTGTGTGGATAACCTAc                     <  1:293898/101‑1 (MQ=255)                                                                         aGGTCTTCCTGGATGTTGCTGCAGGGTTATGTGAAGGGGATGAGCAGTCACCGGAAAAGCGCCCCATAATTTTAGAGGCGCAGGGTGTGTGGATAACCTAc                     >  2:306431/1‑101 (MQ=255)                                                                                   ggATGTTGCTGCAGGGTTATGTGAAGGGGATGAGCAGTCACCGGAAAAGCGCCCCATAATTTTAGAGGCGCAGGGTGTGTGGATAACCTACAAAGGaaaac           <  1:910309/101‑3 (MQ=255)                                                                                   ggATGTTGCTGCAGGGTTATGTGAAGGGGATGAGCAGTCACCGGAAAAGCGCCCCATAATTTTAGAGGCGCAGGGTGTGTGGATAACCTACAAAGGaaaac           <  1:487999/101‑3 (MQ=255)                                                                                      tGTTGCTGCAGGGTTATGTGAAGGGGATGAGCAGTCACCGGAAAAGCGCCCCATAANTTTAGAGGCGCAGGGTGTGTGGATAACCTACAAAGGAAAACtgc        >  1:1300103/1‑99 (MQ=255)                                                                                       gTTGCTGCAGGGTTATGTGAAGGGGATGAGCAGTCACCGGAAAAGCGCCCCATAATTTTAGAGGCGCAGGGTGTGTGGATAACCTACAAAGGAAAACTGcc       <  1:1621215/101‑1 (MQ=255)                                                                                       gTTGCTGCAGGGTTATGTGAAGGGGATGAGCAGTCACCGGAAAAGCGCCCCATAATTTTAGAGGCGCAGGGTGTGTGGATAACCTACAAAGGAAAACTGcc       >  1:660141/1‑101 (MQ=255)                                                                                       gTTGCTGCAGGGTTATGTGAAGGGGATGAGCAGTCACCGGAAAAGCGCCCCATAATTTTAGAGGCGCAGGGTGTGTGGATAACCTACAAAGGAAAACTGcc       >  2:1490007/1‑101 (MQ=255)                                                                                        ttGCTGCAGGGTTATGTGAAGGGGATGAGCAGTCACCGGAAAAGCGCCCCATAATTTTAGAGGCGCAGGGTGTGTGGATAACCTACAAAGGAAAACTGCCg      <  1:640981/101‑1 (MQ=255)                                                                                        ttGCTGCAGGGTTATGTGAAGGGGATGAGCAGTCACCGGAAAAGCGCCCCATAATTTTAGAGGCGCAGGGTGTGTGGATAACCTACAAAGGAAAACTGCCg      <  2:181968/101‑1 (MQ=255)                                                                                          gctgcAGGGTTATGTGAAGGGGATGAGCAGTCACCGGAAAAGCGCCCCATAATTTTAGAGGCGCAGGGTGTGTGGATAACCTACAAAGGAAAACTGCCggg    <  2:1654060/101‑1 (MQ=255)                                                                                            tgcAGGGTTATGTGAAGGGGATGAGCAGTCACCGGAAAAGCGCCCCATAATTTTAGAGGCGCAGGGTGTGTGGATAACCTACAAAGGAAAACTGCCGGgaa  <  1:196601/101‑1 (MQ=255)                                                                                               |                                                                                                  ATGTCGCCATGGACCGTGTTGAAGGAGCTGCGCTGGAGTTTTATGAGGCAGCAGCCAGAAGGAGCATCAGACAGGTCTTCCTGGATGTTGCTGCCGGGTTATGTGAAGGGGATGAGCAGTCGCCGGAAAAGCGCCCCATAATTTTAGAGGCGCAGAATGTGTGGATAACCTACAAAGGAAAGCTACCGGGAA  >  178/194‑385

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑