Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	AE015451	1,419,548:1	+C	100%	intergenic (‑37/+99)	PP_1242 ← / ← PP_1244	conserved protein of unknown function/conserved protein of unknown function

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	AE015451	1,419,548	1	.	C	100.0%	147.6 / NA	41	intergenic (‑37/+99)	PP_1242/PP_1244	conserved protein of unknown function/conserved protein of unknown function
Reads supporting (aligned to +/- strand):  ref base . (0/0);  new base C (14/27);  total (14/27)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

CGTCCATCAGGCCGGTGATGATCAGGTCGCGCACGTAACCCATCAGTTCGGAAGCCTGTTCGCGGGCGTCCTGGCAGGGGATGCCGGGTTCGATGCGGAACAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGG‑CTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACGGCTGTGGTGACCCTGTGGGAGCGGGCGTGCCCGCGAAGAGGCCTGACCTGCTAATGCAAGGTGTGAGGCTCTGTGGGTAAATGCGACCGCATCTGCAACTGCATCAACGCCGACTCGACCAGCCCCTGTACCGCTTCCATTTCATGGATCACGGCCTGCATCACGATCGAGCTGTGG  >  AE015451/1419331‑1419773                                                                                                                                                                                                                           |                                                                                                                                                                                                                                  cGTCCATCAGGCCGGTGATGATCAGGTCGCGCACGTAACCCATCAGTTCGGAAGCCTGTTCGCGGGCGTCCTGGCAGGGGATGCCGGGTTCGATGCGGAACAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGc                                                                                                                                                                                                                   <  1:490775/235‑1 (MQ=255)  gTCCATCAGGCCGGTGATGATCAGGTCGCGCACGTAACCCATCAGTTCGGAAGCCTGTTCGCGGGCGTCCTGGCAGGGGATGCCGGGTTCGATGCGGAACAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGccc                                                                                                                                                                                                                 <  1:677068/236‑1 (MQ=255)                  atgatCAGGTCGCGCACGTAACCCATCAGTTCGGAAGCCTGTTCGCGGGCGTCCTGGCAGGGGATGCCGGGTTCGATGCGGAACAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTACt                                                                                                                                                                                                  <  1:337695/235‑1 (MQ=255)                  atgatCAGGTCGCGCACGTAACCCATCAGTTCGGAAGCCTGTTCGCGGGCGTCCTGGCAGGGGATGCCGGGTTCGATGCGGAACAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTACt                                                                                                                                                                                                  <  1:478252/235‑1 (MQ=255)                       cAGGTCGCGCACGTAACCCATCAGTTCGGAAGCCTGTTCGCGGGCGTCCTGGCAGGGGATGCCGGGTTCGATGCGGAACAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGccc                                                                                                                                                                                                                 <  1:50056/215‑1 (MQ=255)                         ggTCGCGCACGTAACCCATCAGTTCGGAAGCCTGTTCGCGGGCGTCCTGGCAGGGGATGCCGGGTTCGATGCGGAACAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTg                                                                                                                                                                                          <  1:389888/236‑1 (MQ=255)                                             aGTTCGGAAGCCTGTTCGCGGGCGTCCTGGCAGGGGATGCCGGGTTCGATGCGGAACAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACGGCTGTGGTGAccc                                                                                                                                                                      <  1:414624/236‑1 (MQ=255)                                                tCGGAAGCCTGTTCGCGGGCGTCCTGGCAGGGGATGCCGGGTTCGATGCGGAACAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTcc                                                                                                                                                                                                            <  2:663564/195‑1 (MQ=255)                                                 cGGAAGCCTGTTCGCGGGCGTCCTGGCAGGGGATGCCGGGTTCGATGCGGAACAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGccc                                                                                                                                                                                                                 <  2:279679/189‑1 (MQ=255)                                                       ccTGTTCGCGGGCGTCCTGGCAGGGGATGCCGGGTTCGATGCGGAACAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACGGCtgt                                                                                                                                                                              <  1:17931/218‑1 (MQ=255)                                                           ttCGCGGGCGGCCTGGCAGGGGATGCCGGGTTCGATGCGGAACAGCGGGTCAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTg                                                                                                                                                                                          <  2:700296/202‑1 (MQ=255)                                                            tCGCGGGCGTCCTGGCAGGGGATGCCGGGTTCGATGCGGAACAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACGGCTGTGGTGACCCTGTGGGAGCGGGCGt                                                                                                                                                       >  1:716608/1‑236 (MQ=255)                                                                        tGGCAGGGGATGCCGGGTTCGATGCGGAACAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACGGCTGTGGTGACCCTGTGGGAGCGGGCGTGCCCGCGAagag                                                                                                                                           >  1:360303/1‑236 (MQ=255)                                                                            aGGGGATGCCGGGTTCGATGCGGAACAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTcc                                                                                                                                                                                                            <  2:446305/167‑1 (MQ=255)                                                                                   gCCGGGTTCGATGCGGAACAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGc                                                                                                                                                                                                                       <  2:368150/149‑1 (MQ=255)                                                                                   gCCGGGTTCGATGCGGAACAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGccc                                                                                                                                                                                                                 <  2:4540/155‑1 (MQ=255)                                                                                   gCCGGGTTCGATGCGGAACAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGccc                                                                                                                                                                                                                 >  1:4540/1‑155 (MQ=255)                                                                                       ggTTCGATGCGGAACAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCca                                                                                                                                                                                                          >  2:324065/1‑158 (MQ=255)                                                                                       ggTTCGATGCGGAACAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCca                                                                                                                                                                                                          <  1:324066/158‑1 (MQ=255)                                                                                                           gTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACGGCTGTGGTGACCCTGTGGGAGCGGGCGTGCCCGCGAagag                                                                                                                                           >  1:731885/1‑201 (MQ=255)                                                                                                                    gttTTCGCCTTGCTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTCTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCca                                                                                                                                                                                                          <  2:650341/129‑1 (MQ=255)                                                                                                                          gCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTTGGTGCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCg                                                                                                                                                                                        <  2:464091/141‑1 (MQ=255)                                                                                                                                  aGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGAGGGCACGCCCGCGCCCACAGGTACTGCGCAGTGCGTGACGGCGGTGGTGACCCTGCGGGAGCg                                                                                                                                                            >  2:63833/1‑161 (MQ=255)                                                                                                                                    aaGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTGGTCGGTGGGCATTGTTTTGTTTCCCTGGGTTTTGGGTTGCCTGGGCTGGCCTCTTCGCCGGCACGCCCGCTCCCACAGGt                                                                                                                                                                                                     <  2:506286/118‑1 (MQ=38)                                                                                                                                             ttGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGccc                                                                                                                                                                                                                 >  2:279632/1‑97 (MQ=255)                                                                                                                                             ttGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGccc                                                                                                                                                                                                                 <  1:279633/97‑1 (MQ=255)                                                                                                                                             ttGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACGGCTGTGGTGACCCTGTGGGAGCGGGCGTGCCCGCGAAGAGGCCTGACCTGCTAATGCAAGGTGTGAGGCTCTGTGGGTAAATGCGACCGCATCTGCAACTGCATCAACg                                                                      >  1:570438/1‑236 (MQ=255)                                                                                                                                                   aCTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACGGCTGTGGTGACCCTGTGGGAGCGGGCGTGCCCGCGAAGAGGCCTGAc                                                                                                                                    <  2:360302/168‑1 (MQ=255)                                                                                                                                                   aCTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACGGCTGTGGTGACCCTGTGGGAGCGGGCGTGCCCGCGAAGAGGCCTGACCTGCTaa                                                                                                                             <  1:63833/175‑1 (MQ=255)                                                                                                                                                          tggGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACGGCTGTGGTGACCCTGTGGGAGCGGGCGTGCCCGCGAAGAGGCCTGACCTGCTAATGCAAGGTGTGAGGCTCTGTGGGTAAATGCGACCGCATCTGCAACTGCATCAACGCCGACTCGACCAg                                                         >  1:503251/1‑236 (MQ=255)                                                                                                                                                                          gtCGGTAGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTTCGCTGGCCTGTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACGGCTgtgg                                                                                                                                                                            <  2:296386/105‑1 (MQ=37)                                                                                                                                                                                gggCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACGGCTGTGGTGACCCTGTGGGAGCGGGCGTGCCCGCGAAGAGGCCTGACCTGCTAATGCAAGGTGTGAGGc                                                                                                              <  1:460690/161‑1 (MQ=255)                                                                                                                                                                                gggCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGGACGGTGCAGTGCGTGACGGCTGTGGTGACCCGGTGGGCGCGGGCGTGCCCGCGAAGAGGCCTGACCTGCTAATGCCAGGTGAGAGGCGCTGTggg                                                                                                      >  1:698091/1‑169 (MQ=38)                                                                                                                                                                                   cATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAg                                                                                                                                                                                                       <  1:49744/69‑1 (MQ=255)                                                                                                                                                                                   cATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAg                                                                                                                                                                                                       >  2:49744/1‑69 (MQ=255)                                                                                                                                                                                   cATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACGGCTGTGGTGACCCTGTGGGAGCGGGCGTGCCCGCGAAGAGGCCTGACCTGCTAATGCAAGGTGTGAGGCTCTGTGGGTAAATGCGAcc                                                                                           >  2:511568/1‑177 (MQ=255)                                                                                                                                                                                                cccTAGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTCCTGTGCAGTGCGTGACGGCTGTGGTGACCCTGTGGGAGCGGGCGTGCCcg                                                                                                                                                  >  2:395169/1‑109 (MQ=25)                                                                                                                                                                                                  cTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACGGCTGTGGTGACCCTGTGGGAGCGGGCGTGCCCGCGAAGAGGCCTGACCTGCTAATGCAAGGTGTGAGGCTCTGTGGGTAAATGCGACCGCATCTGCAACTGCATCAACGCCGACTCGACCAGCCCCTGTACCGCTTCCATTTCATgg                                <  1:19750/221‑1 (MQ=255)                                                                                                                                                                                                   tGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCAACAGGTACTGTGCAGTGCGTGACGGCTGTGGTGACCCTGTGGGAGCGGGCGTGCCCGCGAAGAGGCCTGACCTGCTAATGCAAGGTGTGAGGCTCTGTGGGTAAATGCGACCGCATCTGCAACTGCATCAACGCCGACTCGACCAGCCCCTGTACCGCTTCCAtt                                      <  1:60606/214‑1 (MQ=255)                                                                                                                                                                                                         cTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACGGCTGTGGTGACCCTGTGGGAGCGGGCGTGCCCGCGAAGAGGCCTGACCTGCTAATGCAAGGTGTGAGGCTCTGTGGGTAAATGCGACCGCATCTGc                                                                                   <  2:99475/163‑1 (MQ=255)                                                                                                                                                                                                                    gggCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACGGCTGTGGTGACCCTGTGGGAGCGGGCGTGCCCGCGAAGAGGCCTGACCTGCTAATGCAAGGTGTGAGGCTCTGTGGGTAAATGCGACCGCATCTGCAACTGCATCAACGCCGACTCGACCAGCCCCTGTACCGCTTCCATTTCATGGATCACGGCCTGCATCACGATCGAGCTGTgg  >  2:514882/1‑233 (MQ=255)                                                                                                                                                                                                                           |                                                                                                                                                                                                                                  CGTCCATCAGGCCGGTGATGATCAGGTCGCGCACGTAACCCATCAGTTCGGAAGCCTGTTCGCGGGCGTCCTGGCAGGGGATGCCGGGTTCGATGCGGAACAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGG‑CTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACGGCTGTGGTGACCCTGTGGGAGCGGGCGTGCCCGCGAAGAGGCCTGACCTGCTAATGCAAGGTGTGAGGCTCTGTGGGTAAATGCGACCGCATCTGCAACTGCATCAACGCCGACTCGACCAGCCCCTGTACCGCTTCCATTTCATGGATCACGGCCTGCATCACGATCGAGCTGTGG  >  AE015451/1419331‑1419773

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑