Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.

ALE, Flask, Isolate	Predicted Mutations	Mean Coverage	Total Reads	Percent Mapped	Mapped Reads	Average Read Length
A2 F1 I2 R1	78	65.3	3016648	94.6%	2853749	111.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,304,813	(C)_7→8	coding (1005/1245 nt)	mtr ←	tryptophan transporter of high affinity

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,304,806	1	.	C	100.0%	179.7 / NA	47	L338V (CTG→GTG)	mtr	tryptophan transporter of high affinity
Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (30/17); total (30/17)

CGGGCTGCCAAAGCGTTTACGCGATGCACGGGCTAACAGCGCCGGAACAATTGCCGCCCAGATGGTAGCCGCTAAACCAGCATAACCAATGGCGTACAGGAATCCGTTCGGGAACAACAG‑‑CCCCCCCACAACTGGCGGGGCAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAGCCGAGTCGTCGAAACCAAACAGATCTGCCAGATAGTCAAACAAACCCAGCGTTACGCCGAGGAACGAACTCG  >  NC_000913/3304687‑3304934

cGGGCTGCCAAAGCGTTTACGCGATGCACGGGCTAACAGCGCCGGAACAATTGCCGCCCAGATGGTAGCCGCTAAACCAGCATAACCAATGGCGTACAGGAATCCGTTCGGGAACAACAGC‑CCCCCCCACAACTGGCgg                                                                                                                >  2:1089553/1‑139 (MQ=255)

  ggCTGCCAAAGCGTTTACGCGATGCACGGGCTAACAGCGCCGGAACAATTGCCGCCCAGATGGTAGCCGCTAAACCAGCATAACCAATGGCGTACAGGAATCCGTTCGGGAACAACAGC‑CCCCCCCACAACTGGCgggg                                                                                                              <  2:858264/139‑1 (MQ=255)

    cTGCCAAAGCGTTTACGCGATGCACGGGCTAACAGCGCCGGAACAATTGCCGCCCAGATGGTAGCCGCTAAACCAGCATAACCAATGGCGTACAGGAATCCGTTCGGGAACAACAGC‑CCCCCCCACAACTGGCGGGGCa                                                                                                            <  1:838550/139‑1 (MQ=255)

    cTGCCAAAGCGTTTACGCGATGCACGGGCTAACAGCGCCGGAACAATTGCCGCCCAGATGGTAGCCGCTAAACCAGCATAACCAATGGCGTACAGGAATCCGTTCGGGAACAACAGC‑CCCCCCCACAACTGGCGGGGCa                                                                                                            <  2:1195207/139‑1 (MQ=255)

                 tACGCGATGCACGGGCTAACAGCGCCGGAACAATTGCCGCCCAGATGGTAGCCGCTAAACCAGCATAACCAATGGCGTACAGGAATCCGTTCGGGAACAACAGC‑CCCCCCCACAACTGGCGGGGCAAAGGTCAGCAATg                                                                                               >  2:1257144/1‑139 (MQ=255)

                       aTGCACGGGCTAACAGCGCCGGAACAATTGCCGCCCAGATGGTAGCCGCTAAACCAGCATAACCAATGGCGTACAGGAATCCGTTCGGGAACAACAGC‑CCCCCCCACAACTGGCGGGGCAAAGGTCAGCAATGCCGttt                                                                                         >  1:1322165/1‑139 (MQ=255)

                            cGGGCTAACAGCGCCGGAACAATTGCCGCCCAGATGGTAGCCGCTAAACCAGCATAACCAATGGCGTACAGGAATCCGTTCGGGAACAACAGC‑CCCCCCCACAACTGGCGGGGCAAAGGTCAGCAATGCCGTTTTCAAg                                                                                    <  2:1322165/139‑1 (MQ=255)

                                  aaCAGCGCCGGAACAATTGCCGCCCAGATGGTAGCCGCTAAACCAGCATAACCAATGGCGTACAGGAATCCGTTCGGGAACAACAGC‑CCCCCCCACAACTGGCGGGGCAAAGGTCAGCAATGCCGTTTTCAAGCGGccc                                                                              >  1:428076/1‑139 (MQ=255)

                                   aCAGCGCCGGAACAATTGCCGCCCAGATGGTAGCCGCTAAACCAGCATAACCAATGGCGTACAGGAATCCGTTCGGGAACAACAGC‑CCCCCCCACAACTGGCGGGGCAAAGGTCAGCAATGCCGTTTTCAAGCGGCCca                                                                             <  2:297606/139‑1 (MQ=255)

                                         ccGGAACAATTGCCGCCCAGATGGTAGCCGCTAAACCAGCATAACCAATGGCGTACAGGAATCCGTTCGGGAACAACAGCCCCCCCCCACAACTGGCGGGGCAAAGGTCAGCAATGCCGTTTTCAAGCGGCCcacaacc                                                                        >  1:1157669/1‑136 (MQ=255)

                                         ccGGAACAATTGCCGCCCAGATGGTAGCCGCTAAACCAGCATAACCAATGGCGTACAGGAATCCGTTCGGGAACAACAGC‑CCCCCCCACAACTGGCGGGGCAAAGGTCAGCAATGCCGTTTTCAAg                                                                                    >  1:1483869/1‑126 (MQ=255)

                                         ccGGAACAATTGCCGCCCAGATGGTAGCCGCTAAACCAGCATAACCAATGGCGTACAGGAATCCGTTCGGGAACAACAGC‑CCCCCCCACAACTGGCGGGGCAAAGGTCAGCAATGCCGTTTTCAAg                                                                                    <  2:1483869/126‑1 (MQ=255)

                                         ccGGAACAATTGCCGCCCAGATGGTAGCCGCTAAACCAGCATAACCAATGGCGTACAGGAATCCGTTCGGGAACAACAGC‑CCCCCCCACAACTGGCGGGGCAAAGGTCAGCAATGCCGTTTTCAAGCGGcc                                                                               >  2:1151958/1‑131 (MQ=255)

                                         ccGGAACAATTGCCGCCCAGATGGTAGCCGCTAAACCAGCATAACCAATGGCGTACAGGAATCCGTTCGGGAACAACAGC‑CCCCCCCACAACTGGCGGGGCAAAGGTCAGCAATGCCGTTTTCAAGCGGcc                                                                               <  1:1151958/131‑1 (MQ=255)

                                         ccGGAACAATTGCCGCCCAGATGGTAGCCGCTAAACCAGCATAACCAATGGCGTACAGGAATCCGTTCGGGAACAACAGC‑CCCCCCCACAACTGGCGGGGCAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAACCg                                                                       >  2:1295457/1‑139 (MQ=255)

                                             aaCAATTGCCGCCCAGATGGTAGCCGCTAAACCAGCATAACCAATGGCGTACAGGAATCCGTTCGGGAACAACAGC‑CCCCCCCACAACTGGCGGGGc                                                                                                             <  1:927699/97‑1 (MQ=255)

                                             aaCAATTGCCGCCCAGATGGTAGCCGCTAAACCAGCATAACCAATGGCGTACAGGAATCCGTTCGGGAACAACAGC‑CCCCCCCACAACTGGCGGGGc                                                                                                             >  2:927699/1‑97 (MQ=255)

                                               cAATTGCCGCCCAGATGGTAGCCGCTAAACCAGCATAACCAATGGCGTACAGGAATCCGTTCGGGAACAACAGC‑CCCCCCCACAACTGGCGGGGCAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAACCGAgtcgt                                                                 <  2:787235/139‑1 (MQ=255)

                                                 aTTGCCGCCCAGATGGTAGCCGCTAAACCAGCATAACCAATGGCGTACAGGAATCCGTTCGGGAACAACAGC‑CCCCCCCACAACTGGCGGGGCAAAGGTCAGCa                                                                                                  >  1:605528/1‑104 (MQ=255)

                                                 aTTGCCGCCCAGATGGTAGCCGCTAAACCAGCATAACCAATGGCGTACAGGAATCCGTTCGGGAACAACAGC‑CCCCCCCACAACTGGCGGGGCAAAGGTCAGCa                                                                                                  <  2:605528/104‑1 (MQ=255)

                                                  ttGCCGCCCAGATGGTAGCCGCTAAACCAGCATAACCAATGGCGTACAGGAATCCGTTCGGGAACAACAGC‑CCCCCCCACAACTGGCGGGGCAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAACCGAGTCGTCGa                                                              >  2:570649/1‑139 (MQ=255)

                                                       gccCAGATGGTAGCCGCTAAACCAGCATAACCAATGGCGTACAGGAATCCGTTCGGGAACAACAGC‑CCCCCCCACAACTGGCGGGGCAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAACCGAGTCGTCGAAACCa                                                         >  2:1453597/1‑139 (MQ=255)

                                                       gccCAGATGGTAGCCGCTAAACCAGCATAACCAATGGCGTACAGGAATCCGTTCGGGAACAACAGC‑CCCCCCCACAACTGGCGGGGCAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAACCGAGTCGTCGAAACCa                                                         >  1:1355125/1‑139 (MQ=255)

                                                              tGGTAGCCGCTAAACCAGCATAACCAATGGCGTACAGGAATCCGTTCGGGAACAACAGC‑CCCCCCCACAACTGGCGGGGCAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAACCGAGTCGTCGAAACCAAACAGAt                                                  <  2:1203413/139‑1 (MQ=255)

                                                                   gCCGCTAAACCAGCATAACCAATGGCGTACAGGAATCCGTTCGGGAACAACAGC‑CCCCCCCACAACTGGCGGGGCAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAACCGAGTCGTCGAAACCAAACAGATCTGcc                                             >  1:1275755/1‑139 (MQ=255)

                                                                       cTAAACCAGCATAACCAATGGCGTACAGGAATCCGTTCGGGAACAACAGC‑CCCCCCCACAACTGGCGGGGCAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAACCGAGTCGTCGAAACCAAACAGATCTGCCAGAt                                         >  2:914035/1‑139 (MQ=255)

                                                                       cTAAACCAGCATAACCAATGGCGTACAGGAATCCGTTCGGGAACAACAGC‑CCCCCCCACAACTGGCGGGGCAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAACCGAGTCGTCGAAACCAAACAGATCTGCCAGAt                                         >  2:480307/1‑139 (MQ=255)

                                                                               gCATAACCAATGGCGTACAGGAATCCGTTCGGGAACAACAGC‑CCCCCCCACAACTGGCGGGGCAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAACCGAGTCGTCGAAACCAAACAg                                                    >  2:1307840/1‑120 (MQ=255)

                                                                               gCATAACCAATGGCGTACAGGAATCCGTTCGGGAACAACAGC‑CCCCCCCACAACTGGCGGGGCAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAACCGAGTCGTCGAAACCAAACAg                                                    <  1:1307840/120‑1 (MQ=255)

                                                                                cATAACCAATGGCGTACAGGAATCCGTTCGGGAACAACAGC‑CCCCCCCACAACTGGCGGGGCAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAACCGAGTCGTCGAAACCAAACAGATCTGCCAGATAGTcaaaca                                >  2:5191/1‑139 (MQ=255)

                                                                                    aCCAATGGCGTACAGGAATCCGTTCGGGAACAACAGC‑CCCCCCCACAACTGGCGGGGCAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAACCGAGTCGTCGAAACCAAACAGATCTGCCAGATAGTCAAACAAAcc                            >  2:1205975/1‑139 (MQ=255)

                                                                                        aTGGCGTACAGGAATCCGTTCGGGAACAACAGC‑CCCCCCCACAACTGGCGGGGCAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAACCGAGTCGTCGAAACCAAACAGATCTGCCAGATAGTCAAACAAACCCAGc                        >  1:781268/1‑139 (MQ=255)

                                                                                         tGGCGTACAGGAATCCGTTCGGGAACAACAGC‑CCCCCCCACAACTGGCGGGGCAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAACCGAGTCGTCGAAACCAAACAGATCTGCCAGATAGTCAAACAAACCCAGCg                       >  1:400045/1‑139 (MQ=255)

                                                                                              tACAGGAGTCCGTTCGGGAACAACAGC‑CCCCCCCACAACTGGCGGGGCAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAACCGAGTCGTCGAAACCAAACAGATCTGCCAGATAGTCAAACAAACCCAGCGTTACg                  >  2:535435/1‑139 (MQ=255)

                                                                                              tACAGGAATCCGTTCGGGAACAACAGCCCCCCCCCACAACTGGCGGGGCAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAACCGAGTCGTCGAAACCAAACAGATCTGCCAGATAGTCAAACAAACCCAGCGTTAc                   >  2:820286/1‑139 (MQ=255)

                                                                                              tACAGGAATCCGTTCGGGAACAACAGC‑CCCCCCCACAACTGGCGGGGCAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAACCGAGTCGTCGAAACCAAACAGATCTGCCAGATAGTCAAACAAAcc                            >  1:1423562/1‑129 (MQ=255)

                                                                                              tACAGGAATCCGTTCGGGAACAACAGC‑CCCCCCCACAACTGGCGGGGCAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAACCGAGTCGTCGAAACCAAACAGATCTGCCAGATAGTCAAACAAAcc                            <  2:1423562/129‑1 (MQ=255)

                                                                                               aCAGGAATCCGTTCGGGAACAACAGC‑CCCCCCCACAACTGGCGGGGCAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAACCGAGTCGTCGAAACCAAACAGATCTGCCAGATAGTCAAACAAACCCAGCGTTACGc                 >  1:383779/1‑139 (MQ=255)

                                                                                               aCAGGAATCCGTTCGGGAACAACAGC‑CCCCCCCACAACTGGCGGGGCAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAACCGAGTCGTCGAAACCAAACAGATCTGCCAGATAGTCAAACAAACCCAGCGTTACGc                 >  2:1499765/1‑139 (MQ=255)

                                                                                                     aTCCGTTCGGGAACAACAGC‑CCCCCCCACAACTGGCGGGGCAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAACCGAGTCGTCGAAACCAAACAGATCTGCCAGATAGTCAAACAAACCCAGCGTTACGCCGAGga           <  1:5191/139‑1 (MQ=255)

                                                                                                     aTCCGTTCGGGAACAACAGC‑CCCCCCCACAACTGGCGGGGCAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAACCGAGTCGTCGAAACCAAACAGATCTGCCAGATAGTCAAACAAACCCAGCGTTACGCCGAGga           <  1:1205975/139‑1 (MQ=255)

                                                                                                      tCCGTTCGGGAACAACAGC‑CCCCCCCACAACTGGCGGGGCCAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAACCCAGTCGTCGAAACCAAACAGAGCTGCCAGATAGTCAAACAAACCCAGCGCTACGCCGAGgaa          >  2:1307028/1‑139 (MQ=255)

                                                                                                        cGTTCGGGAACAACAGC‑CCCCCCCACAACTGGCGGGGCAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAACCGAGTCGTCGAAACCAAACAGATCTGCCAGATAGTCAAACAAACCCAGCGTTACGCCGAGgaacg        >  1:1260155/1‑139 (MQ=255)

                                                                                                          ttCGGGAACAACAGC‑CCCCCCCACAACTGGCGGGGCAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAACCGAGTCGTCGAAACCAAACAGATCTGCCAGATAGTCAAACAAACCCAGCGTTACGCCGAGgaacgaa      >  2:1337421/1‑139 (MQ=255)

                                                                                                           tCGGGAACAACAGC‑CCCCCCCACAACTGGCGGGGCAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAACCGAGTCGTCGAAACCAAACAGATCTGCCAGATAGTCAAACAAACCCAGCGTTACGCCGAGgaacgaac     >  2:1475903/1‑139 (MQ=255)

                                                                                                            cGGGAACAACAGC‑CCCCCCCACAACTGGCGGGGCAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAACCGAGTCGTCGAAACCAAACAGATCTGCCAGATAGTCAAACAAACCCAGCGTTACGCCGAGGAACGAACt    <  1:480307/139‑1 (MQ=255)

                                                                                                              ggAACAACAGC‑CCCCCCCACAACTGGCGGGGCAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAACCGAGTCGTCGAAACCAAACAGATCTGCCAGATAGTCAAACAAACCCAGCGTTACGCCGAGGAACGAACTCg  <  2:1260155/139‑1 (MQ=255)

CGGGCTGCCAAAGCGTTTACGCGATGCACGGGCTAACAGCGCCGGAACAATTGCCGCCCAGATGGTAGCCGCTAAACCAGCATAACCAATGGCGTACAGGAATCCGTTCGGGAACAACAG‑‑CCCCCCCACAACTGGCGGGGCAAAGGTCAGCAATGCCGTTTTCAAGCGGCCCACAGCCGAGTCGTCGAAACCAAACAGATCTGCCAGATAGTCAAACAAACCCAGCGTTACGCCGAGGAACGAACTCG  >  NC_000913/3304687‑3304934

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 26 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A