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
A3 F1 I1 R1	781	46.9	2231650	93.5%	2086592	109.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,441,538	C→T	213 (TAG→TAA)	msrA ←	methionine sulfoxide reductase A

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,441,538	0	C	T	100.0%	169.7 / NA	53	213 (TAG→TAA)	msrA	methionine sulfoxide reductase A
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (27/26); total (27/26)

TGCCGATCAGGCCTACGCAGTCCTTGCAATATATTGAATTTGGACGATTTTGTAGGCCTGGTAAGTCGTTTACGCCGCATCAGGCATAGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGCTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATATTGCTGGTGGTCATCTTCGGCATAATAAAACGGTGTGGCGTTAGCGATTTCCGTGGTGATGTGA  >  NC_000913/4441406‑4441673

tGCCGATCAGGCCTACGCAGTCCTTGCAATATATTGAATTTGGACGATTTTGTAGGCCTGGTAAGTCGTTTACGCCGCATCAGGCATAGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCt                                                                                                                                   >  1:1071699/1‑139 (MQ=255)

  ccGATCAGGCCTACGCAGTCCTTGCAATATATTGAATTTGGACGATTTTGTAGGCCTGGTAAGTCGTTTACGCCGCATCAGGCATAGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTc                                                                                                                                 <  1:268558/139‑1 (MQ=255)

                    tCCTTGCAATATATTGAATTTGGACGATTTTGTAGGCCTGGTAAGTCGTTTACGCCGCATCAGGCATAGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGAcgcc                                                                                                               >  1:544730/1‑139 (MQ=255)

                    tCCTTGCAATATATTGAATTTGGACGATTTTGTAGGCCTGGTAAGTCGTTTACGCCGCATCAGGCATAGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGAcgcc                                                                                                               >  2:297234/1‑139 (MQ=255)

                                   gAATTTGGACGATTTTGTAGGCCTGGTAAGTCGTTTACGCCGCATCAGGCATAGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACgccaattccgccaattcc                                                                                                >  1:156990/1‑139 (MQ=255)

                                    aaTTTGGACGATTTTGTAGGCCTGGTAAGTCGTTTACGCCGCATCAGGCATAGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCca                                                                                               <  2:407712/139‑1 (MQ=255)

                                         ggACGATTTTGTAGGCCTGGTAAGTCGTTTACGCCGCATCAGGCATAGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTa                                                                                          >  1:970285/1‑139 (MQ=255)

                                         ggACGATTTTGTAGGCCTGGTAAGTCGTTTACGCCGCATCAGGCATAGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTa                                                                                          >  2:302533/1‑139 (MQ=255)

                                         ggACGATTTTGTAGGCCTGGTAAGTCGTTTACGCCGCATCAGGCATAGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTa                                                                                          >  2:478974/1‑139 (MQ=255)

                                                         cTGGTAAGTCGTTTACGCCGCATCAGGCATAGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGAcgccaattccgccaattc                                                                                                 <  1:632212/116‑1 (MQ=255)

                                                         cTGGTAAGTCGTTTACGCCGCATCAGGCATAGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGAcgccaattccgccaattc                                                                                                 >  2:632212/1‑116 (MQ=255)

                                                          tGGTAAGTCGTTTACGCCGCATCAGGCATAGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTAt                                                                         <  1:297234/139‑1 (MQ=255)

                                                                   gTTTACGCCGCATCAGGCATAGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATAtt                                                                >  2:866711/1‑139 (MQ=255)

                                                                    tttACGCCGCATCAGGCATAGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATATTg                                                               >  2:127222/1‑139 (MQ=255)

                                                                     ttACGCCGCATCAGGCATAGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATATTGc                                                              <  2:544730/139‑1 (MQ=255)

                                                                     ttACGCCGCATCAGGCATAGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATATTGc                                                              <  2:970285/139‑1 (MQ=255)

                                                                       aCGCCGCATCAGGCATAGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATATTGCtg                                                            <  2:156990/139‑1 (MQ=255)

                                                                                cAGGCATAGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATATTGCTGGTGGTCATc                                                   <  2:1071699/139‑1 (MQ=255)

                                                                                  ggCATAGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATATTGCTGGTGGTCATCtt                                                 >  2:807370/1‑139 (MQ=255)

                                                                                     aTAGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATATTGCTGGTGGTCATCTTCgg                                              <  1:478974/139‑1 (MQ=255)

                                                                                     aTAGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATATTGCTGGTGGTCATCTTCgg                                              <  1:121908/139‑1 (MQ=255)

                                                                                     aTAGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATATTGCTGGTGGTCATCTTCgg                                              <  2:853826/139‑1 (MQ=255)

                                                                                     aTAGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATATTGCTGGTGGTCATCTTCgg                                              <  1:302533/139‑1 (MQ=255)

                                                                                       aGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATATTGCTGGTGGTCATCTTCGGCa                                            >  2:119701/1‑139 (MQ=255)

                                                                                       aGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATATTGCTGGTGGTCATCTTCGGCa                                            <  2:603543/139‑1 (MQ=255)

                                                                                        gACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACCCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATATTGCTGGTGTTCATCTTCGGCat                                           >  2:1003296/1‑139 (MQ=255)

                                                                                             agagCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATATTGCTGGTGGTCATCTTCGGCAtaataa                                      >  2:439370/1‑139 (MQ=255)

                                                                                              gagCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATATTGCTGGTGGTCATCTTCGGCATAATaaa                                     <  1:807370/139‑1 (MQ=255)

                                                                                                   cTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGGCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTAt                                                                         >  2:474895/1‑98 (MQ=255)

                                                                                                   cTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGGCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTAt                                                                         <  1:474895/98‑1 (MQ=255)

                                                                                                     ttATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATATTGCTGGTGGTCATCTTCGGCataa                                         >  1:322909/1‑128 (MQ=255)

                                                                                                     ttATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATATTGCTGGTGGTCATCTTCGGCataa                                         <  2:322909/128‑1 (MQ=255)

                                                                                                         caacaaACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATATTGCTGGTGGTCATCTTCGGCATAATAAAACGGTGTGGCg                          >  2:841654/1‑139 (MQ=255)

                                                                                                            caaACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGt                                                                                           <  2:129886/71‑1 (MQ=255)

                                                                                                            caaACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGt                                                                                           >  1:129886/1‑71 (MQ=255)

                                                                                                              aaCTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATCTTGCTGGTGGTCATCTTCgg                                              >  1:483316/1‑114 (MQ=255)

                                                                                                              aaCTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATATTGCtgg                                                           >  2:234257/1‑101 (MQ=255)

                                                                                                              aaCTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATATTGCtgg                                                           <  1:234257/101‑1 (MQ=255)

                                                                                                              aaCTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATATTGCTGGTGGTCATCTTCgg                                              <  2:483316/114‑1 (MQ=255)

                                                                                                                   cATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATATTGCTGGTGGTCATCTTCGGCATAATAAAACGGTGTGGCGTTAGCGAttt                <  1:119701/139‑1 (MQ=255)

                                                                                                                      ttGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATATTGCTGGTGGTCATCTTCGGCATAATAAAACGGTGTGGCGTTAGCGATTTCCg             <  1:439370/139‑1 (MQ=255)

                                                                                                                         tACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATATTGCTGGTGGTCATCTTCGGCATAATAAAACGGTGTGGCGTTAGCGATTTCCgtgg          <  2:640228/139‑1 (MQ=255)

                                                                                                                          aCCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATATTGCTGGTGGTCATCTTCGGCATAATAAAACGGTGTGGCGTTAGCGATTTCCgtggt         <  1:127222/139‑1 (MQ=255)

                                                                                                                           cccGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATATTGCTGGTGGTCATCTTCGGCATAATAAAACGGTGTGGCGTTAGCGATTTCCgtggtg        >  2:1016999/1‑139 (MQ=255)

                                                                                                                             cGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCca                                                                                               >  2:465132/1‑50 (MQ=255)

                                                                                                                             cGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCca                                                                                               <  1:465132/50‑1 (MQ=255)

                                                                                                                             cGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATATTGCTGGTGGTCATCTTCGGCATAATAAAACGGTGTGGCGTTAGCGATTTCCGTGGTGAt      >  1:1084262/1‑139 (MQ=255)

                                                                                                                              gTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATg                                                                        <  1:807088/72‑1 (MQ=255)

                                                                                                                              gTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATg                                                                        >  2:807088/1‑72 (MQ=255)

                                                                                                                              gTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATATTGCTGGTGGTCATCTTCGGCATAATAAAACGGTGTGGCGTTAGCGATTTCCGTGGTGAtg     >  1:727957/1‑139 (MQ=255)

                                                                                                                               tAACGTTATGCTTCCGGCGGCAGACAGAcgccaattccgccaat                                                                                                   >  1:726351/1‑44 (MQ=255)

                                                                                                                               tAACGTTATGCTTCCGGCGGCAGACAGAcgccaattacgccaat                                                                                                   <  2:726351/44‑1 (MQ=255)

                                                                                                                                aaCGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATATTGCTGGTGGTCATCTTCGGCATAAT‑AAACGGTGTGGCGTTAGCGATTTCCGTGGTGATGTGa  >  1:5458/1‑139 (MQ=255)

TGCCGATCAGGCCTACGCAGTCCTTGCAATATATTGAATTTGGACGATTTTGTAGGCCTGGTAAGTCGTTTACGCCGCATCAGGCATAGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGCTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATATTGCTGGTGGTCATCTTCGGCATAATAAAACGGTGTGGCGTTAGCGATTTCCGTGGTGATGTGA  >  NC_000913/4441406‑4441673

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A